Back to Long Tests report for BioC 3.21

This page was generated on 2025-08-30 23:55 -0400 (Sat, 30 Aug 2025).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo1Linux (Ubuntu 24.04.3 LTS)x86_644.5.1 (2025-06-13) -- "Great Square Root" 4824
merida1macOS 12.7.5 Montereyx86_644.5.1 RC (2025-06-05 r88288) -- "Great Square Root" 4606
Click on any hostname to see more info about the system (e.g. compilers)      (*) as reported by 'uname -p', except on Windows and Mac OS X

Package 6/30HostnameOS / ArchCHECK
biodbChebi 1.14.0  (landing page)
Pierrick Roger
Snapshot Date: 2025-08-30 09:55 -0400 (Sat, 30 Aug 2025)
git_url: https://git.bioconductor.org/packages/biodbChebi
git_branch: RELEASE_3_21
git_last_commit: b8d718f
git_last_commit_date: 2025-04-15 12:39:10 -0400 (Tue, 15 Apr 2025)
nebbiolo1Linux (Ubuntu 24.04.3 LTS) / x86_64  OK  
merida1macOS 12.7.5 Monterey / x86_64  OK  

CHECK results for biodbChebi on nebbiolo1

To the developers/maintainers of the biodbChebi package:
- Use the following Renviron settings to reproduce errors and warnings.
- If 'R CMD check' started to fail recently on the Linux builder(s) over a missing dependency, add the missing dependency to 'Suggests:' in your DESCRIPTION file. See Renviron.bioc for more information.

raw results


Summary

Package: biodbChebi
Version: 1.14.0
Command: /home/biocbuild/bbs-3.21-bioc/R/bin/R CMD check --test-dir=longtests --no-stop-on-test-error --no-codoc --no-examples --no-manual --ignore-vignettes --check-subdirs=no biodbChebi_1.14.0.tar.gz
StartedAt: 2025-08-30 16:01:10 -0400 (Sat, 30 Aug 2025)
EndedAt: 2025-08-30 16:04:44 -0400 (Sat, 30 Aug 2025)
EllapsedTime: 214.2 seconds
RetCode: 0
Status:   OK  
CheckDir: biodbChebi.Rcheck
Warnings: 0

Tests output

biodbChebi.Rcheck/tests/testthat.Rout


R version 4.5.1 (2025-06-13) -- "Great Square Root"
Copyright (C) 2025 The R Foundation for Statistical Computing
Platform: x86_64-pc-linux-gnu

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Type 'license()' or 'licence()' for distribution details.

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Type 'demo()' for some demos, 'help()' for on-line help, or
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> # Script needed to run testthat automatically from ‘R CMD check’. See
> # testthat::test_dir documentation.
> library(testthat)
> library(biodbChebi)
> Sys.setenv(TESTTHAT_REPORTER="summary")
> Sys.setenv(BIODB_LOG_DST="console")
> test_check("biodbChebi")
biodb.INFO [2025-08-30 16:01:45.716][biodb::testContext]
biodb.INFO [2025-08-30 16:01:45.718][biodb::testContext] ********************************************************************************
biodb.INFO [2025-08-30 16:01:45.730][biodb::testContext] Test context - Generic long tests
biodb.INFO [2025-08-30 16:01:45.731][biodb::testContext] ********************************************************************************
biodb.INFO [2025-08-30 16:01:45.732][biodb::testContext]
biodb.INFO [2025-08-30 16:01:45.738][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.16.0.
biodb.DEBUG[2025-08-30 16:01:45.740][self$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.21-bioc/R/site-library/biodb/definitions.yml".
biodb.DEBUG[2025-08-30 16:01:45.746][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-08-30 16:01:45.747][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2025-08-30 16:01:45.748][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2025-08-30 16:01:45.749][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-30 16:01:45.750][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:01:45.751][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:01:45.752][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2025-08-30 16:01:45.768][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2025-08-30 16:01:45.769][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-30 16:01:45.770][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:01:45.771][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:01:45.772][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2025-08-30 16:01:45.773][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2025-08-30 16:01:45.774][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-30 16:01:45.774][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:01:45.775][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:01:45.776][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2025-08-30 16:01:45.777][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2025-08-30 16:01:45.778][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2025-08-30 16:01:45.779][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-30 16:01:45.780][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:01:45.781][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:01:45.782][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2025-08-30 16:01:45.782][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2025-08-30 16:01:45.783][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2025-08-30 16:01:45.784][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-30 16:01:45.785][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:01:45.786][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:01:45.787][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2025-08-30 16:01:45.788][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2025-08-30 16:01:45.789][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-30 16:01:45.790][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:01:45.790][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:01:45.791][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2025-08-30 16:01:45.792][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2025-08-30 16:01:45.793][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2025-08-30 16:01:45.794][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-30 16:01:45.795][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:01:45.796][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:01:45.797][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2025-08-30 16:01:45.798][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2025-08-30 16:01:45.799][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-30 16:01:45.799][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:01:45.800][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:01:45.801][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2025-08-30 16:01:45.802][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2025-08-30 16:01:45.803][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2025-08-30 16:01:45.804][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-30 16:01:45.805][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:01:45.806][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:01:45.807][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2025-08-30 16:01:45.807][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2025-08-30 16:01:45.808][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2025-08-30 16:01:45.809][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2025-08-30 16:01:45.810][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2025-08-30 16:01:45.811][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2025-08-30 16:01:45.812][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-30 16:01:45.813][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:01:45.814][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:01:45.815][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2025-08-30 16:01:45.816][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2025-08-30 16:01:45.817][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-30 16:01:45.817][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:01:45.818][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:01:45.819][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2025-08-30 16:01:45.820][self$set] Set key entries.sep to "|".
biodb.DEBUG[2025-08-30 16:01:45.821][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-30 16:01:45.822][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:01:45.823][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:01:45.824][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2025-08-30 16:01:45.825][self$set] Set key offline to FALSE.
biodb.DEBUG[2025-08-30 16:01:45.825][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-30 16:01:45.826][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:01:45.827][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:01:45.828][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2025-08-30 16:01:45.829][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2025-08-30 16:01:45.830][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-30 16:01:45.831][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:01:45.832][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:01:45.832][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2025-08-30 16:01:45.833][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2025-08-30 16:01:45.834][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-30 16:01:45.835][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:01:45.836][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:01:45.837][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2025-08-30 16:01:45.838][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2025-08-30 16:01:45.843][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2025-08-30 16:01:45.844][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-30 16:01:45.845][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:01:45.846][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:01:45.847][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2025-08-30 16:01:45.848][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2025-08-30 16:01:45.849][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2025-08-30 16:01:45.849][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-30 16:01:45.850][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:01:45.851][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:01:45.855][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2025-08-30 16:01:45.885][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-08-30 16:01:45.900][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2025-08-30 16:01:45.901][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-08-30 16:01:45.908][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-08-30 16:01:45.909][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-08-30 16:01:45.910][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-08-30 16:01:45.911][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-08-30 16:01:45.912][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-08-30 16:01:45.913][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-08-30 16:01:45.914][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-08-30 16:01:45.915][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-08-30 16:01:45.916][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2025-08-30 16:01:45.917][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-08-30 16:01:45.917][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-08-30 16:01:45.918][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-08-30 16:01:45.919][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-08-30 16:01:45.919][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-08-30 16:01:45.919][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-08-30 16:01:45.919][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-08-30 16:01:45.919][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-08-30 16:01:45.920][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-08-30 16:01:45.921][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-30 16:01:45.922][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-30 16:01:45.923][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-08-30 16:01:45.924][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-30 16:01:45.925][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-30 16:01:45.926][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-08-30 16:01:45.927][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-08-30 16:01:45.927][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-08-30 16:01:45.928][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-08-30 16:01:45.929][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-08-30 16:01:45.930][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-08-30 16:01:45.931][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2025-08-30 16:01:45.933][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-08-30 16:01:45.934][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2025-08-30 16:01:45.935][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-08-30 16:01:45.936][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-08-30 16:01:45.937][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-08-30 16:01:45.938][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-08-30 16:01:45.939][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-08-30 16:01:45.940][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-08-30 16:01:45.940][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-08-30 16:01:45.941][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-08-30 16:01:45.942][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-08-30 16:01:45.943][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2025-08-30 16:01:45.944][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-08-30 16:01:45.945][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-08-30 16:01:45.946][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-08-30 16:01:45.947][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-08-30 16:01:45.947][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-08-30 16:01:45.947][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-08-30 16:01:45.947][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-08-30 16:01:45.947][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-08-30 16:01:45.948][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-08-30 16:01:45.949][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-30 16:01:45.950][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-30 16:01:45.951][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-08-30 16:01:45.952][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-30 16:01:45.953][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-30 16:01:45.953][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-08-30 16:01:45.954][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-08-30 16:01:45.955][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-08-30 16:01:45.956][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-08-30 16:01:45.957][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-08-30 16:01:45.958][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-08-30 16:01:45.959][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2025-08-30 16:01:45.961][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-08-30 16:01:45.962][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2025-08-30 16:01:45.963][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-08-30 16:01:45.964][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-08-30 16:01:45.965][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-08-30 16:01:45.966][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-08-30 16:01:45.966][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-08-30 16:01:45.967][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-08-30 16:01:45.968][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-08-30 16:01:45.969][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-08-30 16:01:45.970][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-08-30 16:01:45.971][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2025-08-30 16:01:45.972][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-08-30 16:01:45.973][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-08-30 16:01:45.974][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-08-30 16:01:45.975][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-08-30 16:01:45.976][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-08-30 16:01:45.977][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-30 16:01:45.978][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-30 16:01:45.979][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-08-30 16:01:45.980][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-30 16:01:45.980][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-30 16:01:45.981][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-08-30 16:01:45.982][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-08-30 16:01:45.983][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-08-30 16:01:45.984][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-08-30 16:01:45.985][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-08-30 16:01:45.986][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-08-30 16:01:45.987][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2025-08-30 16:01:45.989][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-08-30 16:01:45.990][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2025-08-30 16:01:45.990][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-08-30 16:01:45.991][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-08-30 16:01:45.992][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-08-30 16:01:45.993][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-08-30 16:01:45.994][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-08-30 16:01:45.995][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-08-30 16:01:45.996][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-08-30 16:01:45.997][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-08-30 16:01:45.998][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-08-30 16:01:45.999][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2025-08-30 16:01:46.000][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-08-30 16:01:46.001][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-08-30 16:01:46.002][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-08-30 16:01:46.003][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-08-30 16:01:46.004][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-08-30 16:01:46.005][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-30 16:01:46.005][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-30 16:01:46.006][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-08-30 16:01:46.007][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-30 16:01:46.008][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-30 16:01:46.009][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-08-30 16:01:46.010][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-08-30 16:01:46.011][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-08-30 16:01:46.012][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-08-30 16:01:46.013][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-08-30 16:01:46.014][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-08-30 16:01:46.017][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-08-30 16:01:46.018][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:01:46.019][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:01:46.020][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-30 16:01:46.021][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:01:46.021][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:01:46.022][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:01:46.023][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:01:46.024][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-30 16:01:46.025][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:01:46.026][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:01:46.027][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:01:46.027][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:01:46.028][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-30 16:01:46.029][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:01:46.030][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:01:46.031][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:01:46.032][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:01:46.033][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-30 16:01:46.033][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:01:46.034][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:01:46.035][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:01:46.036][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:01:46.037][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-30 16:01:46.038][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:01:46.038][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:01:46.039][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:01:46.040][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:01:46.041][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-30 16:01:46.042][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:01:46.043][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:01:46.044][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:01:46.044][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:01:46.045][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-30 16:01:46.046][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:01:46.047][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:01:46.048][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:01:46.049][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:01:46.049][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-30 16:01:46.050][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:01:46.051][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:01:46.052][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:01:46.053][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:01:46.054][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-30 16:01:46.055][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:01:46.055][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:01:46.056][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:01:46.057][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:01:46.058][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-30 16:01:46.066][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:01:46.068][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:01:46.069][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:01:46.070][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:01:46.071][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-30 16:01:46.072][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:01:46.073][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:01:46.074][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:01:46.075][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:01:46.076][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-30 16:01:46.077][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:01:46.078][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:01:46.078][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:01:46.079][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:01:46.080][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-30 16:01:46.081][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:01:46.082][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:01:46.083][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:01:46.084][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:01:46.104][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-30 16:01:46.105][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:01:46.105][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:01:46.106][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:01:46.107][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:01:46.108][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-30 16:01:46.109][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:01:46.110][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:01:46.111][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:01:46.112][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:01:46.113][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-30 16:01:46.114][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:01:46.115][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:01:46.116][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:01:46.117][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:01:46.118][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-30 16:01:46.119][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:01:46.119][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:01:46.120][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:01:46.121][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:01:46.122][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2025-08-30 16:01:46.128][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2025-08-30 16:01:46.129][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2025-08-30 16:01:46.131][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2025-08-30 16:01:46.132][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-08-30 16:01:46.134][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-08-30 16:01:46.135][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2025-08-30 16:01:46.137][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2025-08-30 16:01:46.138][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2025-08-30 16:01:46.140][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-08-30 16:01:46.141][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-08-30 16:01:46.143][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2025-08-30 16:01:46.144][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2025-08-30 16:01:46.145][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2025-08-30 16:01:46.147][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2025-08-30 16:01:46.148][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-08-30 16:01:46.150][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2025-08-30 16:01:46.151][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2025-08-30 16:01:46.152][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-08-30 16:01:46.154][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2025-08-30 16:01:46.155][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2025-08-30 16:01:46.157][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2025-08-30 16:01:46.158][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2025-08-30 16:01:46.160][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2025-08-30 16:01:46.161][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2025-08-30 16:01:46.162][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2025-08-30 16:01:46.164][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2025-08-30 16:01:46.165][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2025-08-30 16:01:46.167][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2025-08-30 16:01:46.168][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2025-08-30 16:01:46.170][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2025-08-30 16:01:46.171][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2025-08-30 16:01:46.173][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2025-08-30 16:01:46.174][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2025-08-30 16:01:46.175][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2025-08-30 16:01:46.177][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2025-08-30 16:01:46.178][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2025-08-30 16:01:46.180][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2025-08-30 16:01:46.181][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2025-08-30 16:01:46.182][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2025-08-30 16:01:46.184][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2025-08-30 16:01:46.185][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2025-08-30 16:01:46.187][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2025-08-30 16:01:46.188][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2025-08-30 16:01:46.190][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2025-08-30 16:01:46.191][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2025-08-30 16:01:46.193][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2025-08-30 16:01:46.194][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2025-08-30 16:01:46.195][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2025-08-30 16:01:46.197][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2025-08-30 16:01:46.198][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2025-08-30 16:01:46.200][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2025-08-30 16:01:46.201][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2025-08-30 16:01:46.203][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2025-08-30 16:01:46.204][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2025-08-30 16:01:46.205][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2025-08-30 16:01:46.207][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2025-08-30 16:01:46.208][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2025-08-30 16:01:46.210][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2025-08-30 16:01:46.211][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2025-08-30 16:01:46.213][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2025-08-30 16:01:46.214][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2025-08-30 16:01:46.216][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2025-08-30 16:01:46.217][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2025-08-30 16:01:46.218][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2025-08-30 16:01:46.220][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2025-08-30 16:01:46.221][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-08-30 16:01:46.223][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-08-30 16:01:46.224][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2025-08-30 16:01:46.225][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2025-08-30 16:01:46.227][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2025-08-30 16:01:46.228][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2025-08-30 16:01:46.230][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2025-08-30 16:01:46.231][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2025-08-30 16:01:46.232][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2025-08-30 16:01:46.234][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2025-08-30 16:01:46.235][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2025-08-30 16:01:46.237][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2025-08-30 16:01:46.238][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2025-08-30 16:01:46.240][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2025-08-30 16:01:46.241][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2025-08-30 16:01:46.242][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2025-08-30 16:01:46.244][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2025-08-30 16:01:46.250][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2025-08-30 16:01:46.252][initialize] This is biodb version 1.16.0.
biodb.DEBUG[2025-08-30 16:01:46.255][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-08-30 16:01:46.256][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:01:46.257][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:01:46.258][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:01:46.259][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:01:46.264][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-30 16:01:46.265][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:01:46.266][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:01:46.266][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:01:46.267][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:01:46.268][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:01:46.269][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:01:46.270][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-30 16:01:46.271][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:01:46.272][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:01:46.273][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:01:46.273][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:01:46.274][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:01:46.275][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:01:46.276][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-30 16:01:46.277][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:01:46.278][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:01:46.279][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:01:46.284][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:01:46.285][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:01:46.286][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:01:46.287][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-30 16:01:46.287][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:01:46.288][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:01:46.289][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:01:46.290][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:01:46.291][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:01:46.292][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:01:46.292][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-30 16:01:46.293][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:01:46.294][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:01:46.295][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:01:46.296][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:01:46.297][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:01:46.297][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:01:46.298][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-30 16:01:46.299][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:01:46.300][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:01:46.301][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:01:46.302][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:01:46.302][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:01:46.303][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:01:46.304][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-30 16:01:46.305][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:01:46.306][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:01:46.307][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:01:46.308][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:01:46.309][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:01:46.309][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:01:46.310][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-30 16:01:46.311][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:01:46.312][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:01:46.313][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:01:46.314][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:01:46.314][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:01:46.315][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:01:46.316][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-30 16:01:46.317][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:01:46.318][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:01:46.319][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:01:46.320][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:01:46.320][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:01:46.321][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:01:46.322][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-30 16:01:46.323][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:01:46.324][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:01:46.325][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:01:46.326][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:01:46.326][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:01:46.327][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:01:46.328][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-30 16:01:46.329][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:01:46.330][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:01:46.331][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:01:46.331][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:01:46.332][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:01:46.333][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:01:46.334][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-30 16:01:46.335][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:01:46.336][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:01:46.337][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:01:46.337][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:01:46.338][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:01:46.339][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:01:46.340][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-30 16:01:46.341][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:01:46.342][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:01:46.342][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:01:46.343][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:01:46.344][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:01:46.345][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:01:46.346][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-30 16:01:46.347][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:01:46.348][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:01:46.348][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:01:46.349][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:01:46.350][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:01:46.351][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:01:46.352][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-30 16:01:46.353][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:01:46.354][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:01:46.354][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:01:46.355][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:01:46.356][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:01:46.357][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:01:46.358][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-30 16:01:46.359][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:01:46.360][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:01:46.360][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:01:46.361][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:01:46.362][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:01:46.363][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:01:46.364][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-30 16:01:46.365][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:01:46.365][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:01:46.366][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:01:46.367][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:01:46.368][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:01:46.369][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:01:46.371][biodb$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.21-bioc-longtests/meat/biodbChebi.Rcheck/biodbChebi/definitions.yml".
biodb.DEBUG[2025-08-30 16:01:46.380][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2025-08-30 16:01:46.382][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-08-30 16:01:46.383][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2025-08-30 16:01:46.384][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-08-30 16:01:46.385][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-08-30 16:01:46.385][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-08-30 16:01:46.386][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-08-30 16:01:46.387][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2025-08-30 16:01:46.388][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2025-08-30 16:01:46.389][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2025-08-30 16:01:46.390][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-08-30 16:01:46.391][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-08-30 16:01:46.392][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2025-08-30 16:01:46.393][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-08-30 16:01:46.394][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2025-08-30 16:01:46.394][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2025-08-30 16:01:46.394][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2025-08-30 16:01:46.394][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2025-08-30 16:01:46.394][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2025-08-30 16:01:46.394][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2025-08-30 16:01:46.394][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2025-08-30 16:01:46.394][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2025-08-30 16:01:46.394][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2025-08-30 16:01:46.394][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2025-08-30 16:01:46.394][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2025-08-30 16:01:46.395][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2025-08-30 16:01:46.396][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-08-30 16:01:46.396][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-08-30 16:01:46.396][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-08-30 16:01:46.397][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2025-08-30 16:01:46.398][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-30 16:01:46.399][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-30 16:01:46.400][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-08-30 16:01:46.401][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-30 16:01:46.402][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-30 16:01:46.402][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-08-30 16:01:46.403][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-08-30 16:01:46.403][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2025-08-30 16:01:46.404][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-08-30 16:01:46.405][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-08-30 16:01:46.406][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2025-08-30 16:01:46.407][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2025-08-30 16:01:46.407][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2025-08-30 16:01:46.413][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-08-30 16:01:46.414][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-08-30 16:01:46.416][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2025-08-30 16:01:46.417][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-08-30 16:01:46.418][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-08-30 16:01:46.420][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-08-30 16:01:46.441][super$initialize] Initialize connector chebi.
biodb.DEBUG[2025-08-30 16:01:46.442][super$initialize] Register connector chebi with the request scheduler
biodb.DEBUG[2025-08-30 16:01:46.446][private$bdb$getRequestScheduler()$re ...] Register connector chebi.
biodb.DEBUG[2025-08-30 16:01:46.450][private$addConnectorRules] Create new rule for URL "www.ebi.ac.uk" of connector "chebi".
biodb.DEBUG[2025-08-30 16:01:46.483][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-08-30 16:01:46.484][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-08-30 16:01:46.485][rule$addConnector] Connector "chebi" is already listed in rule "www.ebi.ac.uk".
biodb.DEBUG[2025-08-30 16:01:46.486][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2025-08-30 16:01:46.494][biodb::testThat]
biodb.INFO [2025-08-30 16:01:46.495][biodb::testThat] Running test function  test.entry.fields  (" Entry fields have a correct value ").
biodb.INFO [2025-08-30 16:01:46.495][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-08-30 16:01:46.496][biodb::testThat]
biodb.TRACE[2025-08-30 16:01:46.499][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/bbs-3.21-bioc-longtests/meat/biodbChebi.Rcheck/biodbChebi/testref/entry-chebi-15440-content.xml".
biodb.DEBUG[2025-08-30 16:01:46.501][biodb$getFactory()$createEntryFromCo ...] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-30 16:01:46.504][biodb$getFactory()$createEntryFromCo ...] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-30 16:01:46.511][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:01:46.512][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:01:46.513][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:01:46.525][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:01:46.526][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:01:46.526][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:01:46.527][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:01:46.536][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:01:46.537][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:01:46.538][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:46.539][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:46.541][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:01:46.552][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:01:46.553][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:46.554][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:46.555][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:01:46.556][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:01:46.557][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:46.558][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:46.583][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:01:46.584][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:01:46.585][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:46.586][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:46.587][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:01:46.588][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:01:46.589][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:46.590][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:46.591][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:01:46.592][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:01:46.593][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:46.594][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:46.595][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:01:46.596][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:01:46.597][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:46.598][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:46.599][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:01:46.600][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:01:46.601][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:46.602][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:46.603][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:01:46.604][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:01:46.605][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:46.606][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:46.607][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:01:46.608][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:01:46.609][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:46.610][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:46.611][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:01:46.612][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:01:46.613][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:46.614][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:46.615][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:01:46.616][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:01:46.617][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:46.618][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:46.619][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:01:46.620][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:01:46.621][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:46.622][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:46.623][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:01:46.624][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:01:46.625][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:46.626][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:46.627][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:01:46.628][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:01:46.629][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:46.630][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:46.631][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:01:46.632][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:01:46.633][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:46.640][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:46.641][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:01:46.642][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:01:46.643][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:46.644][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:46.645][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:01:46.646][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:01:46.647][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:46.648][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:46.649][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:01:46.650][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:01:46.651][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:46.652][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:46.653][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:01:46.654][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:01:46.655][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:46.656][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:46.657][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:01:46.658][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:01:46.659][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:46.660][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:46.661][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:01:46.662][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:01:46.663][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:46.664][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:46.665][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:01:46.666][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:01:46.667][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:46.668][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:46.669][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:01:46.670][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:01:46.671][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:46.671][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:46.672][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:01:46.673][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:01:46.674][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:46.675][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:46.676][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:01:46.677][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:01:46.678][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:46.679][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:46.680][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:01:46.681][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:01:46.682][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:46.683][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:46.684][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:01:46.685][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:01:46.686][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:46.687][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:46.688][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:01:46.689][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:01:46.690][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:46.691][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:46.722][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:01:46.724][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:01:46.724][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:46.725][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:46.726][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:01:46.727][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:01:46.728][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:46.729][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:46.730][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:01:46.731][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:01:46.732][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:46.733][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:01:46.734][biodb$getFactory()$createEntryFromCo ...] Accession numbers: 15440.
biodb.TRACE[2025-08-30 16:01:46.736][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:01:46.737][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:01:46.738][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:46.739][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:46.740][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:01:46.741][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:01:46.742][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:46.743][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:46.769][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:01:46.770][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:01:46.771][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:46.772][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:46.773][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:01:46.774][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:01:46.775][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:46.775][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:46.776][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:01:46.777][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:01:46.778][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:46.779][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:46.780][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:01:46.781][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:01:46.782][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:46.783][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:46.784][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-30 16:01:46.785][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-30 16:01:46.786][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:46.787][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:46.788][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-30 16:01:46.789][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-30 16:01:46.790][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:46.791][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:46.792][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-08-30 16:01:46.793][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-08-30 16:01:46.794][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:46.795][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:46.796][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-08-30 16:01:46.797][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-08-30 16:01:46.797][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:46.798][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:46.814][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:01:46.815][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:01:46.816][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:46.816][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:46.829][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:01:46.830][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:01:46.831][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:46.832][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:46.836][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:01:46.837][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:01:46.838][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:46.839][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:46.840][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:01:46.841][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:01:46.842][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:46.843][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:46.844][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:01:46.845][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:01:46.846][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:46.847][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:46.849][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:01:46.850][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:01:46.851][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:46.852][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:46.853][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:01:46.854][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:01:46.855][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:46.856][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:46.857][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:01:46.858][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:01:46.859][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:46.860][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:46.861][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:01:46.862][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:01:46.863][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:46.864][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:46.865][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:01:46.866][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:01:46.867][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:46.867][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:46.868][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:01:46.869][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:01:46.870][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:46.871][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:46.878][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:01:46.879][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:01:46.880][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:46.881][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:46.882][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:01:46.883][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:01:46.884][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:46.885][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:46.886][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:01:46.887][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:01:46.888][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:46.889][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:46.890][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:01:46.891][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:01:46.892][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:46.893][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:46.894][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:01:46.895][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:01:46.895][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:46.896][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:46.909][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:01:46.910][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:01:46.911][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:46.911][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:46.912][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:01:46.913][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:01:46.914][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:46.915][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:46.916][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:01:46.917][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:01:46.918][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:46.919][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:46.920][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:01:46.921][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:01:46.922][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:46.923][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:46.924][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:01:46.925][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:01:46.926][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:46.927][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:46.934][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:01:46.935][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:01:46.936][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:46.937][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:46.938][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:01:46.939][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:01:46.940][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:46.941][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:46.942][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:01:46.943][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:01:46.944][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:46.945][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:46.946][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:01:46.947][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:01:46.948][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:46.949][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:46.950][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:01:46.951][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:01:46.952][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:46.953][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:46.960][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:01:46.961][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:01:46.962][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:46.963][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:46.964][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:01:46.965][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:01:46.966][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:46.967][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:46.968][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:01:46.969][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:01:46.970][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:46.970][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:46.971][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:01:46.972][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:01:46.973][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:46.974][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:46.975][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:01:46.976][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:01:46.977][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:46.978][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:46.985][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:01:46.986][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:01:46.987][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:46.988][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:46.989][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:01:46.990][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:01:46.991][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:46.992][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:46.993][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:01:46.994][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:01:46.995][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:46.996][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:46.997][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:01:46.998][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:01:46.999][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:47.000][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:47.001][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:01:47.002][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:01:47.002][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:47.003][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:47.011][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:01:47.012][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:01:47.013][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:47.013][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:47.014][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:01:47.015][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:01:47.016][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:47.017][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:47.018][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:01:47.019][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:01:47.020][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:47.021][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:47.022][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:01:47.023][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:01:47.024][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:47.025][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:47.026][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:01:47.027][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:01:47.028][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:47.029][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:47.040][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:01:47.041][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:01:47.042][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:47.042][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:47.043][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:01:47.044][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:01:47.045][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:47.046][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:47.047][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:01:47.048][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:01:47.049][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:47.050][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:47.051][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:01:47.052][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:01:47.053][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:47.054][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:47.055][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:01:47.056][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:01:47.057][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:47.058][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:47.065][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:01:47.066][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:01:47.067][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:47.068][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:47.069][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:01:47.070][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:01:47.071][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:47.072][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:47.073][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:01:47.074][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:01:47.074][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:47.075][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:47.076][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:01:47.077][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:01:47.078][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:47.079][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:47.080][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:01:47.081][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:01:47.082][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:47.083][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:47.090][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:01:47.091][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:01:47.092][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:47.093][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:47.094][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:01:47.095][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:01:47.096][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:47.097][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:47.098][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:01:47.099][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:01:47.100][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:47.101][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:47.102][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:01:47.103][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:01:47.104][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:47.105][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:47.106][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:01:47.107][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:01:47.108][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:47.109][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:47.116][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:01:47.117][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:01:47.118][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:47.119][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:47.120][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:01:47.121][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:01:47.122][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:47.123][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:47.124][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:01:47.125][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:01:47.125][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:47.126][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:47.127][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:01:47.128][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:01:47.129][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:47.130][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:47.131][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:01:47.132][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:01:47.133][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:47.134][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:47.142][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:01:47.143][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:01:47.144][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:47.144][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:47.145][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:01:47.146][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:01:47.147][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:47.148][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:47.149][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:01:47.150][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:01:47.151][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:47.152][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:47.153][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:01:47.154][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:01:47.155][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:47.156][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:47.157][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:01:47.158][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:01:47.159][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:47.160][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:47.171][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:01:47.172][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:01:47.173][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:47.174][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:47.175][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:01:47.176][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:01:47.176][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:47.177][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:47.178][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:01:47.179][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:01:47.180][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:47.181][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:47.182][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:01:47.183][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:01:47.184][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:47.185][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:47.186][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:01:47.187][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:01:47.188][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:47.189][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:47.196][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:01:47.197][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:01:47.198][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:47.199][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:47.203][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:01:47.204][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:01:47.205][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:47.206][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:47.210][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:01:47.211][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:01:47.211][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:47.212][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:47.216][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:01:47.217][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:01:47.218][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:47.219][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:47.223][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:01:47.224][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:01:47.225][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:47.226][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:47.229][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:01:47.230][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:01:47.231][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:47.232][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:47.236][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:01:47.237][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:01:47.238][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:47.239][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:47.243][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:01:47.244][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:01:47.244][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:47.245][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:47.249][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:01:47.250][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:01:47.251][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:47.252][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:47.256][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:01:47.257][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:01:47.258][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:47.258][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:47.262][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:01:47.263][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:01:47.264][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:47.265][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:47.281][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/bbs-3.21-bioc-longtests/meat/biodbChebi.Rcheck/biodbChebi/testref/entry-chebi-2528-content.xml".
biodb.DEBUG[2025-08-30 16:01:47.317][biodb$getFactory()$createEntryFromCo ...] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-30 16:01:47.318][biodb$getFactory()$createEntryFromCo ...] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-30 16:01:47.319][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:01:47.320][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:01:47.321][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:01:47.325][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:01:47.326][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:01:47.327][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:01:47.328][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:01:47.330][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:01:47.331][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:01:47.332][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:47.333][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:47.334][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:01:47.335][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:01:47.336][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:47.337][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:47.353][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:01:47.354][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:01:47.355][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:47.356][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:47.357][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:01:47.358][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:01:47.359][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:47.360][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:47.361][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:01:47.362][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:01:47.363][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:47.364][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:47.365][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:01:47.366][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:01:47.367][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:47.368][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:47.369][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:01:47.370][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:01:47.371][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:47.372][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:47.373][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:01:47.374][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:01:47.375][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:47.376][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:47.377][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:01:47.378][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:01:47.379][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:47.380][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:47.381][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:01:47.382][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:01:47.383][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:47.384][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:47.385][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:01:47.386][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:01:47.387][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:47.387][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:47.389][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:01:47.390][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:01:47.391][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:47.391][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:47.392][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:01:47.393][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:01:47.394][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:47.395][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:47.396][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:01:47.397][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:01:47.398][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:47.399][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:47.400][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:01:47.401][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:01:47.402][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:47.403][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:47.404][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:01:47.405][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:01:47.406][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:47.407][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:47.408][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:01:47.409][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:01:47.410][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:47.411][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:47.412][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:01:47.413][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:01:47.414][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:47.415][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:47.420][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:01:47.421][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:01:47.422][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:47.422][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:47.423][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:01:47.424][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:01:47.425][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:47.426][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:47.427][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:01:47.428][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:01:47.429][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:47.430][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:47.431][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:01:47.432][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:01:47.433][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:47.434][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:47.435][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:01:47.436][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:01:47.437][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:47.438][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:47.439][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:01:47.440][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:01:47.441][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:47.442][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:47.443][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:01:47.444][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:01:47.444][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:47.445][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:47.446][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:01:47.447][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:01:47.448][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:47.449][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:47.450][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:01:47.451][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:01:47.452][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:47.453][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:47.454][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:01:47.455][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:01:47.456][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:47.457][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:47.458][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:01:47.459][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:01:47.460][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:47.461][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:47.462][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:01:47.463][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:01:47.464][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:47.464][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:47.465][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:01:47.466][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:01:47.467][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:47.468][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:47.469][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:01:47.470][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:01:47.471][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:47.472][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:01:47.473][biodb$getFactory()$createEntryFromCo ...] Accession numbers: 2528.
biodb.TRACE[2025-08-30 16:01:47.492][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:01:47.493][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:01:47.494][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:47.495][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:47.496][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:01:47.497][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:01:47.498][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:47.499][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:47.500][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:01:47.501][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:01:47.502][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:47.502][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:47.503][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:01:47.504][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:01:47.505][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:47.506][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:47.507][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:01:47.508][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:01:47.509][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:47.510][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:47.511][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:01:47.512][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:01:47.513][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:47.514][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:47.515][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-30 16:01:47.516][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-30 16:01:47.517][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:47.518][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:47.518][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-30 16:01:47.519][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-30 16:01:47.520][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:47.521][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:47.522][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-08-30 16:01:47.523][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-08-30 16:01:47.524][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:47.525][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:47.526][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-08-30 16:01:47.527][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-08-30 16:01:47.528][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:47.529][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:47.531][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:01:47.532][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:01:47.533][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:47.534][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:47.538][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:01:47.539][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:01:47.540][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:47.541][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:47.548][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:01:47.549][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:01:47.550][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:47.551][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:47.552][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:01:47.553][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:01:47.554][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:47.555][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:47.556][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:01:47.557][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:01:47.558][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:47.559][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:47.561][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:01:47.562][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:01:47.563][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:47.564][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:47.565][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:01:47.566][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:01:47.566][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:47.567][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:47.568][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:01:47.569][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:01:47.570][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:47.571][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:47.572][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:01:47.573][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:01:47.574][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:47.575][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:47.576][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:01:47.577][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:01:47.578][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:47.579][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:47.580][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:01:47.581][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:01:47.582][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:47.583][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:47.598][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:01:47.599][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:01:47.600][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:47.601][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:47.602][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:01:47.603][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:01:47.604][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:47.605][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:47.606][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:01:47.607][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:01:47.608][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:47.609][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:47.610][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:01:47.611][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:01:47.612][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:47.613][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:47.613][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:01:47.614][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:01:47.615][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:47.616][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:47.624][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:01:47.625][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:01:47.626][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:47.626][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:47.627][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:01:47.628][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:01:47.629][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:47.630][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:47.631][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:01:47.632][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:01:47.633][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:47.634][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:47.635][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:01:47.636][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:01:47.637][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:47.638][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:47.639][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:01:47.640][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:01:47.641][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:47.642][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:47.649][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:01:47.650][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:01:47.651][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:47.652][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:47.652][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:01:47.654][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:01:47.654][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:47.655][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:47.656][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:01:47.657][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:01:47.658][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:47.659][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:47.660][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:01:47.661][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:01:47.662][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:47.663][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:47.664][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:01:47.665][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:01:47.666][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:47.667][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:47.678][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:01:47.679][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:01:47.680][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:47.681][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:47.682][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:01:47.683][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:01:47.683][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:47.684][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:47.685][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:01:47.686][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:01:47.687][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:47.688][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:47.689][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:01:47.690][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:01:47.691][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:47.692][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:47.693][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:01:47.694][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:01:47.695][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:47.696][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:47.703][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:01:47.704][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:01:47.705][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:47.706][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:47.707][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:01:47.708][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:01:47.709][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:47.710][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:47.711][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:01:47.712][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:01:47.713][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:47.714][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:47.715][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:01:47.716][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:01:47.716][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:47.717][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:47.718][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:01:47.719][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:01:47.720][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:47.721][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:47.728][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:01:47.729][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:01:47.730][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:47.731][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:47.732][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:01:47.733][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:01:47.734][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:47.735][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:47.736][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:01:47.737][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:01:47.738][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:47.739][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:47.740][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:01:47.741][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:01:47.742][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:47.743][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:47.744][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:01:47.745][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:01:47.746][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:47.746][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:47.754][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:01:47.755][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:01:47.756][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:47.756][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:47.757][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:01:47.758][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:01:47.759][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:47.760][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:47.761][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:01:47.762][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:01:47.763][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:47.764][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:47.765][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:01:47.766][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:01:47.767][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:47.768][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:47.769][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:01:47.770][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:01:47.771][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:47.772][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:47.779][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:01:47.780][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:01:47.781][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:47.781][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:47.782][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:01:47.783][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:01:47.784][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:47.785][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:47.786][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:01:47.787][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:01:47.788][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:47.789][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:47.790][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:01:47.791][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:01:47.792][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:47.793][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:47.794][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:01:47.795][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:01:47.796][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:47.796][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:47.804][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:01:47.805][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:01:47.809][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:47.810][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:47.811][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:01:47.812][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:01:47.813][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:47.814][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:47.815][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:01:47.816][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:01:47.817][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:47.817][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:47.818][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:01:47.819][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:01:47.820][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:47.821][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:47.822][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:01:47.823][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:01:47.824][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:47.825][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:47.832][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:01:47.833][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:01:47.834][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:47.835][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:47.836][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:01:47.837][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:01:47.838][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:47.839][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:47.840][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:01:47.841][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:01:47.842][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:47.843][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:47.844][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:01:47.845][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:01:47.845][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:47.846][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:47.847][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:01:47.848][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:01:47.849][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:47.850][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:47.857][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:01:47.858][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:01:47.859][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:47.860][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:47.861][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:01:47.862][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:01:47.863][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:47.864][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:47.865][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:01:47.866][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:01:47.867][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:47.868][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:47.869][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:01:47.870][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:01:47.871][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:47.871][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:47.872][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:01:47.873][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:01:47.874][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:47.875][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:47.883][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:01:47.884][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:01:47.885][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:47.885][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:47.886][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:01:47.887][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:01:47.888][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:47.889][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:47.890][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:01:47.891][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:01:47.892][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:47.893][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:47.894][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:01:47.895][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:01:47.896][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:47.897][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:47.898][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:01:47.899][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:01:47.900][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:47.901][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:47.908][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:01:47.909][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:01:47.910][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:47.911][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:47.912][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:01:47.913][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:01:47.913][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:47.914][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:47.915][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:01:47.916][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:01:47.917][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:47.918][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:47.919][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:01:47.920][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:01:47.921][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:47.922][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:47.923][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:01:47.924][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:01:47.925][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:47.926][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:47.933][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:01:47.934][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:01:47.935][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:47.939][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:47.943][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:01:47.944][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:01:47.945][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:47.946][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:47.950][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:01:47.951][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:01:47.952][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:47.952][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:47.956][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:01:47.957][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:01:47.958][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:47.959][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:47.963][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:01:47.964][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:01:47.965][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:47.966][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:47.969][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:01:47.970][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:01:47.971][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:47.972][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:47.976][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:01:47.977][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:01:47.978][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:47.979][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:47.983][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:01:47.984][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:01:47.985][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:47.986][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:47.989][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:01:47.990][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:01:47.991][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:47.992][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:47.996][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:01:47.997][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:01:47.998][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:47.999][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:48.003][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:01:48.004][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:01:48.005][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:48.005][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:48.010][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/bbs-3.21-bioc-longtests/meat/biodbChebi.Rcheck/biodbChebi/testref/entry-chebi-7799-content.xml".
biodb.DEBUG[2025-08-30 16:01:48.011][biodb$getFactory()$createEntryFromCo ...] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-30 16:01:48.012][biodb$getFactory()$createEntryFromCo ...] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-30 16:01:48.013][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:01:48.014][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:01:48.015][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:01:48.019][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:01:48.020][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:01:48.021][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:01:48.021][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:01:48.024][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:01:48.025][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:01:48.026][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:48.027][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:48.028][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:01:48.029][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:01:48.030][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:48.031][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:48.032][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:01:48.033][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:01:48.034][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:48.034][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:48.036][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:01:48.037][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:01:48.038][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:48.038][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:48.040][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:01:48.041][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:01:48.041][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:48.042][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:48.044][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:01:48.045][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:01:48.045][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:48.046][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:48.047][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:01:48.048][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:01:48.049][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:48.050][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:48.051][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:01:48.052][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:01:48.053][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:48.054][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:48.055][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:01:48.056][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:01:48.057][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:48.058][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:48.059][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:01:48.060][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:01:48.061][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:48.062][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:48.063][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:01:48.064][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:01:48.065][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:48.066][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:48.067][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:01:48.072][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:01:48.073][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:48.074][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:48.075][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:01:48.076][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:01:48.076][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:48.077][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:48.079][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:01:48.080][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:01:48.080][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:48.081][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:48.082][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:01:48.083][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:01:48.084][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:48.085][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:48.086][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:01:48.087][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:01:48.088][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:48.089][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:48.090][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:01:48.091][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:01:48.092][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:48.093][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:48.094][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:01:48.095][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:01:48.096][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:48.097][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:48.098][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:01:48.099][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:01:48.100][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:48.101][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:48.102][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:01:48.103][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:01:48.104][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:48.105][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:48.106][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:01:48.107][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:01:48.108][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:48.109][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:48.110][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:01:48.111][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:01:48.112][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:48.113][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:48.114][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:01:48.115][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:01:48.116][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:48.117][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:48.118][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:01:48.119][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:01:48.120][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:48.121][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:48.122][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:01:48.123][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:01:48.123][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:48.124][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:48.125][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:01:48.126][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:01:48.127][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:48.128][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:48.129][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:01:48.130][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:01:48.131][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:48.132][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:48.133][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:01:48.134][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:01:48.135][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:48.136][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:48.137][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:01:48.138][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:01:48.139][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:48.140][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:48.141][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:01:48.142][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:01:48.143][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:48.144][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:48.144][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:01:48.145][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:01:48.146][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:48.147][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:48.148][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:01:48.149][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:01:48.150][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:48.151][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:01:48.152][biodb$getFactory()$createEntryFromCo ...] Accession numbers: 7799.
biodb.TRACE[2025-08-30 16:01:48.154][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:01:48.155][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:01:48.156][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:48.157][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:48.158][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:01:48.159][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:01:48.160][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:48.161][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:48.162][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:01:48.163][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:01:48.164][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:48.165][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:48.165][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:01:48.167][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:01:48.167][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:48.168][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:48.169][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:01:48.170][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:01:48.171][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:48.172][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:48.173][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:01:48.174][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:01:48.175][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:48.176][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:48.177][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-30 16:01:48.178][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-30 16:01:48.179][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:48.180][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:48.181][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-30 16:01:48.182][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-30 16:01:48.183][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:48.184][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:48.185][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-08-30 16:01:48.186][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-08-30 16:01:48.186][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:48.187][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:48.188][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-08-30 16:01:48.189][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-08-30 16:01:48.190][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:48.191][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:48.193][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:01:48.194][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:01:48.195][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:48.196][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:48.200][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:01:48.201][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:01:48.202][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:48.207][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:48.211][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:01:48.212][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:01:48.213][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:48.214][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:48.215][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:01:48.216][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:01:48.217][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:48.218][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:48.219][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:01:48.220][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:01:48.221][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:48.222][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:48.224][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:01:48.225][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:01:48.226][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:48.227][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:48.228][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:01:48.229][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:01:48.230][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:48.231][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:48.232][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:01:48.233][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:01:48.234][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:48.235][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:48.236][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:01:48.237][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:01:48.238][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:48.239][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:48.240][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:01:48.241][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:01:48.242][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:48.243][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:48.243][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:01:48.245][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:01:48.245][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:48.246][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:48.252][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:01:48.253][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:01:48.254][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:48.255][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:48.256][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:01:48.257][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:01:48.258][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:48.259][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:48.260][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:01:48.261][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:01:48.262][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:48.263][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:48.264][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:01:48.265][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:01:48.266][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:48.267][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:48.268][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:01:48.269][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:01:48.270][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:48.271][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:48.278][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:01:48.279][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:01:48.280][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:48.281][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:48.282][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:01:48.283][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:01:48.284][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:48.285][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:48.286][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:01:48.287][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:01:48.288][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:48.289][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:48.290][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:01:48.291][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:01:48.292][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:48.293][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:48.294][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:01:48.295][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:01:48.295][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:48.296][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:48.304][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:01:48.305][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:01:48.306][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:48.306][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:48.307][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:01:48.308][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:01:48.309][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:48.310][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:48.311][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:01:48.312][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:01:48.313][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:48.314][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:48.315][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:01:48.316][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:01:48.317][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:48.318][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:48.319][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:01:48.320][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:01:48.321][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:48.321][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:48.329][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:01:48.330][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:01:48.331][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:48.331][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:48.332][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:01:48.333][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:01:48.334][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:48.335][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:48.336][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:01:48.341][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:01:48.342][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:48.343][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:48.344][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:01:48.345][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:01:48.346][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:48.346][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:48.347][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:01:48.348][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:01:48.349][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:48.350][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:48.357][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:01:48.358][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:01:48.359][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:48.360][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:48.361][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:01:48.362][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:01:48.363][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:48.364][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:48.365][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:01:48.366][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:01:48.367][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:48.368][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:48.369][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:01:48.370][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:01:48.371][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:48.372][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:48.373][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:01:48.374][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:01:48.374][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:48.375][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:48.383][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:01:48.384][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:01:48.384][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:48.385][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:48.386][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:01:48.387][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:01:48.388][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:48.389][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:48.390][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:01:48.391][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:01:48.392][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:48.393][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:48.394][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:01:48.395][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:01:48.396][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:48.397][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:48.398][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:01:48.399][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:01:48.400][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:48.400][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:48.408][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:01:48.409][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:01:48.410][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:48.410][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:48.411][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:01:48.412][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:01:48.413][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:48.414][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:48.415][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:01:48.416][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:01:48.417][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:48.418][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:48.419][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:01:48.420][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:01:48.421][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:48.422][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:48.423][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:01:48.424][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:01:48.425][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:48.426][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:48.433][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:01:48.434][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:01:48.435][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:48.436][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:48.436][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:01:48.437][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:01:48.438][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:48.439][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:48.440][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:01:48.441][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:01:48.442][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:48.443][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:48.444][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:01:48.445][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:01:48.446][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:48.447][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:48.448][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:01:48.449][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:01:48.450][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:48.451][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:48.458][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:01:48.459][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:01:48.460][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:48.461][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:48.461][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:01:48.462][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:01:48.463][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:48.464][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:48.465][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:01:48.466][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:01:48.471][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:48.472][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:48.473][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:01:48.474][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:01:48.475][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:48.476][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:48.477][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:01:48.478][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:01:48.478][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:48.479][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:48.487][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:01:48.488][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:01:48.489][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:48.490][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:48.491][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:01:48.492][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:01:48.492][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:48.493][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:48.494][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:01:48.495][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:01:48.496][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:48.497][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:48.498][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:01:48.499][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:01:48.500][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:48.501][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:48.502][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:01:48.503][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:01:48.504][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:48.505][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:48.512][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:01:48.513][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:01:48.514][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:48.515][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:48.516][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:01:48.517][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:01:48.518][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:48.519][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:48.520][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:01:48.521][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:01:48.522][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:48.522][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:48.523][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:01:48.524][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:01:48.525][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:48.526][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:48.527][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:01:48.528][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:01:48.529][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:48.530][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:48.538][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:01:48.539][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:01:48.540][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:48.541][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:48.545][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:01:48.546][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:01:48.547][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:48.548][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:48.551][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:01:48.552][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:01:48.553][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:48.554][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:48.558][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:01:48.559][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:01:48.560][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:48.561][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:48.565][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:01:48.566][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:01:48.567][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:48.568][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:48.571][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:01:48.572][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:01:48.573][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:48.574][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:48.578][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:01:48.579][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:01:48.580][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:48.581][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:48.585][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:01:48.586][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:01:48.586][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:48.587][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:48.591][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:01:48.592][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:01:48.593][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:48.594][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:48.601][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:01:48.602][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:01:48.603][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:48.604][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:48.608][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:01:48.609][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:01:48.610][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:48.611][ef$get] fields variable is a list.
biodb.INFO [2025-08-30 16:01:48.617][biodb::testThat]
biodb.INFO [2025-08-30 16:01:48.618][biodb::testThat] Running test function  test.rt.unit  (" RT unit is defined when there is an RT value. ").
biodb.INFO [2025-08-30 16:01:48.619][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-08-30 16:01:48.620][biodb::testThat]
biodb.DEBUG[2025-08-30 16:01:48.622][private$loadEntries] Creating entries from ids [3]: "15440, 2528, 7799".
biodb.DEBUG[2025-08-30 16:01:48.628][conn$getEntryContent] Get ChEBI entry content(s) for 3 id(s)...
biodb.TRACE[2025-08-30 16:01:48.632][cch$loadFileContent] Trying to load 3 files from cache: [3]: "15440, 2528, 7799".
biodb.TRACE[2025-08-30 16:01:48.633][cch$loadFileContent] file.exist = [3]: "TRUE, TRUE, TRUE".
biodb.TRACE[2025-08-30 16:01:48.636][loadFileContents] Loaded 3 files from cache: [3]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/15440.xml, /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/2528.xml, /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/7799.xml".
biodb.DEBUG[2025-08-30 16:01:48.637][conn$getEntryContent] 3 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-30 16:01:48.638][self$createEntryFromContent] Creating ChEBI entries from 3 content(s).
biodb.DEBUG[2025-08-30 16:01:48.639][self$createEntryFromContent] Parsing 3 ChEBI entries.
biodb.DEBUG[2025-08-30 16:01:48.641][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:01:48.642][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:01:48.642][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:01:48.646][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:01:48.647][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:01:48.648][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:01:48.649][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:01:48.651][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:01:48.652][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:01:48.653][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:48.654][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:48.655][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:01:48.656][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:01:48.657][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:48.658][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:48.659][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:01:48.660][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:01:48.661][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:48.662][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:48.663][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:01:48.664][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:01:48.665][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:48.666][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:48.667][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:01:48.668][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:01:48.669][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:48.670][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:48.671][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:01:48.672][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:01:48.673][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:48.674][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:48.675][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:01:48.676][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:01:48.677][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:48.678][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:48.679][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:01:48.680][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:01:48.681][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:48.682][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:48.683][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:01:48.684][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:01:48.684][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:48.685][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:48.687][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:01:48.688][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:01:48.688][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:48.689][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:48.690][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:01:48.691][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:01:48.692][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:48.693][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:48.694][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:01:48.695][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:01:48.696][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:48.697][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:48.698][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:01:48.699][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:01:48.700][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:48.701][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:48.702][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:01:48.703][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:01:48.704][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:48.705][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:48.706][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:01:48.707][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:01:48.708][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:48.709][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:48.710][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:01:48.711][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:01:48.712][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:48.713][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:48.714][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:01:48.715][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:01:48.716][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:48.717][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:48.718][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:01:48.719][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:01:48.720][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:48.721][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:48.722][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:01:48.723][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:01:48.724][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:48.725][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:48.726][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:01:48.727][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:01:48.728][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:48.729][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:48.730][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:01:48.731][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:01:48.731][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:48.732][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:48.734][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:01:48.735][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:01:48.735][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:48.741][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:48.742][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:01:48.743][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:01:48.744][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:48.745][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:48.746][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:01:48.747][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:01:48.748][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:48.749][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:48.749][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:01:48.750][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:01:48.751][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:48.752][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:48.753][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:01:48.754][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:01:48.755][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:48.756][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:48.757][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:01:48.758][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:01:48.759][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:48.760][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:48.761][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:01:48.762][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:01:48.763][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:48.764][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:48.765][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:01:48.766][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:01:48.767][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:48.768][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:01:48.769][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:01:48.770][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:01:48.770][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:01:48.775][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:01:48.776][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:01:48.776][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:01:48.777][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:01:48.779][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:01:48.780][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:01:48.781][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:48.782][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:48.783][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:01:48.784][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:01:48.785][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:48.786][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:48.787][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:01:48.788][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:01:48.789][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:48.790][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:48.791][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:01:48.792][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:01:48.793][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:48.794][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:48.795][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:01:48.796][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:01:48.797][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:48.798][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:48.799][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:01:48.800][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:01:48.801][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:48.802][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:48.803][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:01:48.804][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:01:48.805][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:48.806][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:48.807][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:01:48.808][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:01:48.809][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:48.810][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:48.811][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:01:48.812][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:01:48.813][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:48.814][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:48.815][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:01:48.816][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:01:48.817][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:48.818][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:48.819][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:01:48.820][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:01:48.821][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:48.822][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:48.823][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:01:48.824][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:01:48.825][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:48.826][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:48.827][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:01:48.828][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:01:48.829][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:48.830][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:48.831][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:01:48.832][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:01:48.833][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:48.834][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:48.835][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:01:48.836][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:01:48.837][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:48.837][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:48.839][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:01:48.840][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:01:48.841][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:48.841][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:48.842][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:01:48.843][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:01:48.844][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:48.845][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:48.847][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:01:48.848][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:01:48.849][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:48.849][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:48.850][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:01:48.851][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:01:48.852][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:48.853][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:48.854][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:01:48.855][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:01:48.856][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:48.857][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:48.858][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:01:48.859][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:01:48.860][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:48.861][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:48.862][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:01:48.863][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:01:48.864][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:48.865][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:48.866][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:01:48.867][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:01:48.872][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:48.873][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:48.874][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:01:48.875][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:01:48.876][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:48.877][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:48.878][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:01:48.879][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:01:48.879][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:48.880][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:48.881][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:01:48.882][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:01:48.883][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:48.884][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:48.885][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:01:48.886][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:01:48.887][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:48.888][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:48.889][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:01:48.890][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:01:48.891][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:48.892][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:48.893][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:01:48.894][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:01:48.895][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:48.896][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:01:48.897][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:01:48.898][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:01:48.899][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:01:48.903][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:01:48.904][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:01:48.905][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:01:48.906][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:01:48.908][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:01:48.909][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:01:48.910][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:48.911][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:48.912][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:01:48.913][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:01:48.914][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:48.915][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:48.916][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:01:48.917][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:01:48.918][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:48.919][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:48.920][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:01:48.921][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:01:48.922][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:48.923][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:48.924][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:01:48.925][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:01:48.926][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:48.927][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:48.928][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:01:48.929][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:01:48.930][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:48.931][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:48.932][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:01:48.933][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:01:48.934][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:48.934][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:48.936][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:01:48.937][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:01:48.938][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:48.938][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:48.940][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:01:48.941][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:01:48.942][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:48.942][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:48.944][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:01:48.945][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:01:48.946][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:48.946][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:48.948][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:01:48.949][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:01:48.949][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:48.950][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:48.952][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:01:48.953][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:01:48.954][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:48.954][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:48.955][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:01:48.957][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:01:48.957][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:48.958][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:48.959][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:01:48.961][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:01:48.961][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:48.962][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:48.963][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:01:48.964][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:01:48.965][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:48.966][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:48.967][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:01:48.968][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:01:48.969][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:48.970][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:48.971][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:01:48.972][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:01:48.973][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:48.974][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:48.975][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:01:48.976][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:01:48.977][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:48.978][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:48.979][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:01:48.980][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:01:48.981][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:48.982][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:48.983][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:01:48.984][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:01:48.985][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:48.986][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:48.987][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:01:48.988][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:01:48.989][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:48.990][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:48.991][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:01:48.992][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:01:48.993][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:48.994][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:48.995][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:01:48.996][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:01:48.997][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:48.998][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:49.003][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:01:49.004][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:01:49.004][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:49.005][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:49.006][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:01:49.007][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:01:49.008][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:49.009][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:49.010][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:01:49.011][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:01:49.012][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:49.013][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:49.014][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:01:49.015][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:01:49.016][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:49.017][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:49.017][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:01:49.018][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:01:49.019][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:49.020][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:49.021][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:01:49.022][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:01:49.023][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:49.024][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:49.025][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:01:49.026][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:01:49.027][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:49.028][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:49.029][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:01:49.030][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:01:49.031][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:49.032][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:49.033][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:01:49.034][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:01:49.035][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:49.036][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:49.037][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:01:49.038][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:01:49.038][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:49.039][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:49.040][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:01:49.041][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:01:49.042][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:49.043][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:49.044][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:01:49.045][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:01:49.046][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:49.047][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:49.048][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:01:49.049][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:01:49.050][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:49.051][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:49.052][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:01:49.053][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:01:49.054][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:49.055][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:49.055][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:01:49.056][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:01:49.057][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:49.058][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:01:49.059][self$createEntryFromContent] Accession numbers: 15440, 2528, 7799.
biodb.TRACE[2025-08-30 16:01:49.060][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.
biodb.TRACE[2025-08-30 16:01:49.061][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.
biodb.TRACE[2025-08-30 16:01:49.062][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:49.063][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:49.064][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.min.
biodb.TRACE[2025-08-30 16:01:49.065][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.min.
biodb.TRACE[2025-08-30 16:01:49.066][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:49.067][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:49.068][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.max.
biodb.TRACE[2025-08-30 16:01:49.069][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.max.
biodb.TRACE[2025-08-30 16:01:49.070][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:49.071][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:49.075][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.
biodb.TRACE[2025-08-30 16:01:49.076][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.
biodb.TRACE[2025-08-30 16:01:49.077][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:49.078][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:49.079][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.min.
biodb.TRACE[2025-08-30 16:01:49.080][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.min.
biodb.TRACE[2025-08-30 16:01:49.081][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:49.082][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:49.083][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.max.
biodb.TRACE[2025-08-30 16:01:49.084][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.max.
biodb.TRACE[2025-08-30 16:01:49.085][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:49.086][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:49.090][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.
biodb.TRACE[2025-08-30 16:01:49.091][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.
biodb.TRACE[2025-08-30 16:01:49.092][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:49.093][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:49.094][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.min.
biodb.TRACE[2025-08-30 16:01:49.095][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.min.
biodb.TRACE[2025-08-30 16:01:49.095][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:49.096][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:49.097][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.max.
biodb.TRACE[2025-08-30 16:01:49.098][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.max.
biodb.TRACE[2025-08-30 16:01:49.099][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:49.100][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-08-30 16:01:49.107][biodb::testThat]
biodb.INFO [2025-08-30 16:01:49.108][biodb::testThat] Running test function  test.searchForEntries  (" We can search for an entry by searchable field ").
biodb.INFO [2025-08-30 16:01:49.108][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-08-30 16:01:49.109][biodb::testThat]
biodb.TRACE[2025-08-30 16:01:49.112][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:01:49.113][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:01:49.114][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:49.115][ef$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:01:49.116][function(conn, opt)] Testing searchForEntries() with entry "15440" and field "name".
biodb.TRACE[2025-08-30 16:01:49.141][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:01:49.143][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:01:49.143][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:49.144][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:49.145][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:01:49.146][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:01:49.147][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:49.148][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:49.149][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:01:49.150][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:01:49.151][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:49.152][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:01:49.155][function(conn, opt)] With value "squalene".
biodb.DEBUG[2025-08-30 16:01:49.159][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
biodb.DEBUG[2025-08-30 16:01:49.178][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-08-30 16:01:49.193][cch$loadFileContent] Trying to load 1 files from cache: [1]: "1ad88a023c4ce2bc0629db4acebeee05".
biodb.TRACE[2025-08-30 16:01:49.194][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-08-30 16:01:49.196][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/1ad88a023c4ce2bc0629db4acebeee05.content".
biodb.DEBUG[2025-08-30 16:01:49.217][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-08-30 16:01:49.220][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-08-30 16:01:49.221][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2025-08-30 16:01:49.222][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-08-30 16:01:49.224][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.DEBUG[2025-08-30 16:01:49.226][function(conn, opt)] With found IDs [1]: "15440".
biodb.TRACE[2025-08-30 16:01:49.236][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:01:49.237][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:01:49.238][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:49.254][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:49.255][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:01:49.256][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:01:49.256][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:49.257][ef$get] fields variable is a list.
biodb.INFO [2025-08-30 16:01:49.261][biodb::testThat]
biodb.INFO [2025-08-30 16:01:49.262][biodb::testThat] Running test function  test.searchByName  (" We can search for an entry by name. ").
biodb.INFO [2025-08-30 16:01:49.263][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-08-30 16:01:49.263][biodb::testThat]
biodb.TRACE[2025-08-30 16:01:49.285][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:01:49.286][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:01:49.287][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:49.288][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:49.289][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:01:49.290][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:01:49.291][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:49.292][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:49.293][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:01:49.294][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:01:49.294][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:49.295][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:01:49.346][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-08-30 16:01:49.349][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-08-30 16:01:49.350][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2025-08-30 16:01:49.351][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-08-30 16:01:49.353][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.INFO [2025-08-30 16:01:49.370][biodb::testThat]
biodb.INFO [2025-08-30 16:01:49.371][biodb::testThat] Running test function  testEntryLoading  (" We can load an entry from the database. ").
biodb.INFO [2025-08-30 16:01:49.372][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-08-30 16:01:49.373][biodb::testThat]
biodb.TRACE[2025-08-30 16:01:49.381][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:01:49.382][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:01:49.383][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:49.384][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:49.385][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:01:49.386][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:01:49.387][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:49.388][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:49.389][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:01:49.390][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:01:49.391][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:49.391][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:49.392][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:01:49.393][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:01:49.394][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:49.395][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:49.396][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:01:49.397][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:01:49.398][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:49.399][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:49.400][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:01:49.401][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:01:49.402][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:49.403][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:49.404][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-30 16:01:49.405][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-30 16:01:49.406][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:49.407][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:49.408][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-30 16:01:49.409][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-30 16:01:49.409][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:49.410][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:49.411][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-08-30 16:01:49.412][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-08-30 16:01:49.413][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:49.414][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:49.415][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-08-30 16:01:49.416][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-08-30 16:01:49.417][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:49.418][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:49.428][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:01:49.429][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:01:49.429][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:49.430][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:49.431][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:01:49.432][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:01:49.433][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:49.434][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:49.435][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:01:49.436][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:01:49.437][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:49.438][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:49.439][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:01:49.440][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:01:49.441][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:49.442][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:49.443][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:01:49.444][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:01:49.445][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:49.446][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:49.446][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:01:49.447][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:01:49.448][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:49.449][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:49.450][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-30 16:01:49.451][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-30 16:01:49.452][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:49.453][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:49.454][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-30 16:01:49.455][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-30 16:01:49.456][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:49.457][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:49.458][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-08-30 16:01:49.459][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-08-30 16:01:49.460][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:49.461][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:49.462][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-08-30 16:01:49.463][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-08-30 16:01:49.464][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:49.464][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-08-30 16:01:49.470][biodb::testThat]
biodb.INFO [2025-08-30 16:01:49.471][biodb::testThat] Running test function  test.entry.page.url  (" We can get a URL pointing to the entry page. ").
biodb.INFO [2025-08-30 16:01:49.472][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-08-30 16:01:49.473][biodb::testThat]
biodb.INFO [2025-08-30 16:01:49.480][biodb::testThat]
biodb.INFO [2025-08-30 16:01:49.481][biodb::testThat] Running test function  test.entry.image.url  (" We can get a URL pointing to the entry image. ").
biodb.INFO [2025-08-30 16:01:49.482][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-08-30 16:01:49.483][biodb::testThat]
biodb.INFO [2025-08-30 16:01:49.495][biodb::testThat]
biodb.INFO [2025-08-30 16:01:49.496][biodb::testThat] Running test function  test.entry.page.url.download  (" The entry page URL can be downloaded. ").
biodb.INFO [2025-08-30 16:01:49.497][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-08-30 16:01:49.498][biodb::testThat]
biodb.DEBUG[2025-08-30 16:01:49.501][function(conn, opt)] Trying to download "https://www.ebi.ac.uk/chebi/searchId.do?chebiId=15440".
biodb.DEBUG[2025-08-30 16:01:50.582][getUrlContent] Use RCurl for downloading content of URL https://www.ebi.ac.uk/chebi/searchId.do?chebiId=15440.
biodb.INFO [2025-08-30 16:01:51.852][biodb::testThat]
biodb.INFO [2025-08-30 16:01:51.853][biodb::testThat] Running test function  test.entry.image.url.download  (" The entry image URL can be downloaded. ").
biodb.INFO [2025-08-30 16:01:51.854][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-08-30 16:01:51.855][biodb::testThat]
biodb.DEBUG[2025-08-30 16:01:52.212][getUrlContent] Use RCurl for downloading content of URL https://www.ebi.ac.uk/chebi/displayImage.do?defaultImage=true&imageIndex=0&chebiId=15440&dimensions=400.
biodb.TRACE[2025-08-30 16:01:52.576][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:01:52.579][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:01:52.581][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:52.584][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:52.586][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:01:52.589][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:01:52.591][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:52.594][ef$get] fields variable is a list.
biodb.INFO [2025-08-30 16:01:52.599][biodb::testThat]
biodb.INFO [2025-08-30 16:01:52.601][biodb::testThat] Running test function  test.searchCompound  (" We can search for a compound ").
biodb.INFO [2025-08-30 16:01:52.603][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-08-30 16:01:52.606][biodb::testThat]
biodb.TRACE[2025-08-30 16:01:52.624][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:01:52.626][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:01:52.627][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:52.629][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:52.630][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:01:52.632][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:01:52.633][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:52.634][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:52.635][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:01:52.637][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:01:52.638][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:52.639][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:01:52.731][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-08-30 16:01:52.734][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-08-30 16:01:52.735][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2025-08-30 16:01:52.736][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-08-30 16:01:52.738][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.DEBUG[2025-08-30 16:01:52.799][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-08-30 16:01:52.802][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-08-30 16:01:52.803][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2025-08-30 16:01:52.804][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-08-30 16:01:52.805][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.TRACE[2025-08-30 16:01:52.817][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-08-30 16:01:52.818][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-08-30 16:01:52.819][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:52.820][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:52.824][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:01:52.825][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:01:52.826][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:52.827][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:52.828][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:01:52.829][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:01:52.830][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:52.831][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:52.832][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:01:52.833][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:01:52.834][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:52.835][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:52.835][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:01:52.836][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:01:52.837][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:52.838][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:52.839][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:01:52.840][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:01:52.841][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:52.842][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:01:52.849][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.72*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-08-30 16:01:52.852][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-08-30 16:01:52.853][cch$loadFileContent] Trying to load 1 files from cache: [1]: "dabc9e8530050c4ceebbaec76743bcf1".
biodb.TRACE[2025-08-30 16:01:52.855][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-08-30 16:01:52.856][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/dabc9e8530050c4ceebbaec76743bcf1.content".
biodb.DEBUG[2025-08-30 16:01:52.858][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:01:52.859][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:01:52.860][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:01:52.864][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:01:52.865][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:01:52.866][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:01:52.867][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:01:52.868][private$loadEntries] Creating entries from ids [1]: "192288".
biodb.DEBUG[2025-08-30 16:01:52.916][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-08-30 16:01:52.918][cch$loadFileContent] Trying to load 1 files from cache: [1]: "192288".
biodb.TRACE[2025-08-30 16:01:52.919][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-08-30 16:01:52.920][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-08-30 16:01:52.921][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-30 16:01:52.922][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-08-30 16:01:52.923][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-08-30 16:01:52.924][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-08-30 16:01:52.927][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:01:52.927][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:01:52.928][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:01:52.933][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:01:52.933][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:01:52.934][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:01:52.935][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:01:52.936][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=192288".
biodb.DEBUG[2025-08-30 16:01:52.939][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-08-30 16:01:52.940][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-08-30 16:01:52.941][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=192288".
biodb.TRACE[2025-08-30 16:01:53.287][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=192288).
biodb.DEBUG[2025-08-30 16:01:53.628][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-08-30 16:01:53.633][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/7e76f7a384ab933ed01801c92c3eec77.content"
biodb.TRACE[2025-08-30 16:01:53.666][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/7e76f7a384ab933ed01801c92c3eec77.request"
biodb.TRACE[2025-08-30 16:01:53.671][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/192288.xml"
biodb.DEBUG[2025-08-30 16:01:53.673][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-08-30 16:01:53.676][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-30 16:01:53.686][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-30 16:01:53.689][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:01:53.691][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:01:53.692][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:01:53.697][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:01:53.698][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:01:53.699][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:01:53.700][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:01:53.703][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:01:53.704][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:01:53.705][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:53.706][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:53.707][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:01:53.708][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:01:53.709][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:53.710][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:53.712][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:01:53.713][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:01:53.714][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:53.714][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:53.716][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:01:53.717][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:01:53.718][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:53.719][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:53.720][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:01:53.721][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:01:53.722][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:53.723][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:53.724][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:01:53.725][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:01:53.726][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:53.727][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:53.728][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:01:53.729][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:01:53.730][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:53.731][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:53.732][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:01:53.733][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:01:53.734][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:53.735][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:53.736][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:01:53.737][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:01:53.738][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:53.738][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:53.740][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:01:53.741][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:01:53.741][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:53.742][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:53.743][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:01:53.744][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:01:53.745][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:53.746][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:53.747][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:01:53.748][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:01:53.749][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:53.750][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:53.751][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:01:53.752][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:01:53.753][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:53.754][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:53.755][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:01:53.756][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:01:53.757][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:53.758][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:53.759][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:01:53.760][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:01:53.761][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:53.762][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:53.763][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:01:53.764][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:01:53.765][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:53.766][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:53.767][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:01:53.768][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:01:53.769][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:53.770][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:53.771][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:01:53.772][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:01:53.773][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:53.774][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:53.775][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:01:53.776][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:01:53.777][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:53.778][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:53.783][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:01:53.784][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:01:53.785][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:53.786][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:53.787][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:01:53.788][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:01:53.789][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:53.790][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:53.791][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:01:53.792][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:01:53.793][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:53.794][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:53.795][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:01:53.796][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:01:53.797][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:53.798][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:53.799][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:01:53.800][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:01:53.801][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:53.802][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:53.803][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:01:53.804][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:01:53.805][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:53.806][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:53.807][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:01:53.808][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:01:53.809][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:53.809][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:53.810][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:01:53.811][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:01:53.812][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:53.813][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:53.814][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:01:53.815][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:01:53.816][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:53.817][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:53.818][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:01:53.819][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:01:53.820][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:53.821][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:53.822][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:01:53.823][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:01:53.824][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:53.825][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:53.826][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:01:53.827][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:01:53.828][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:53.829][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:01:53.830][self$createEntryFromContent] Accession numbers: 192288.
biodb.TRACE[2025-08-30 16:01:53.839][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:01:53.840][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:01:53.841][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:53.842][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:53.843][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:01:53.844][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:01:53.845][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:53.846][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:53.847][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:01:53.848][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:01:53.848][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:53.849][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:01:53.851][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.73*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-08-30 16:01:53.854][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-08-30 16:01:53.855][cch$loadFileContent] Trying to load 1 files from cache: [1]: "41b7f9723242a79cfe14bebd91dbb5b6".
biodb.TRACE[2025-08-30 16:01:53.856][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-08-30 16:01:53.858][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/41b7f9723242a79cfe14bebd91dbb5b6.content".
biodb.DEBUG[2025-08-30 16:01:53.876][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:01:53.877][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:01:53.878][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:01:53.882][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:01:53.883][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:01:53.884][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:01:53.885][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:01:53.886][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:01:53.887][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:01:53.888][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:53.888][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:53.889][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:01:53.890][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:01:53.891][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:53.892][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:53.893][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:01:53.894][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:01:53.895][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:53.896][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:01:53.897][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:01:53.898][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:01:53.899][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:01:53.903][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:01:53.904][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:01:53.905][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:01:53.905][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:01:53.907][private$loadEntries] Creating entries from ids [1]: "209892".
biodb.DEBUG[2025-08-30 16:01:53.908][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-08-30 16:01:53.909][cch$loadFileContent] Trying to load 1 files from cache: [1]: "209892".
biodb.TRACE[2025-08-30 16:01:53.910][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-08-30 16:01:53.911][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-08-30 16:01:53.912][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-30 16:01:53.913][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-08-30 16:01:53.914][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-08-30 16:01:53.915][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-08-30 16:01:53.928][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:01:53.929][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:01:53.930][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:01:53.934][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:01:53.935][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:01:53.936][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:01:53.937][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:01:53.938][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=209892".
biodb.DEBUG[2025-08-30 16:01:53.956][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-08-30 16:01:53.957][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-08-30 16:01:53.971][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=209892".
biodb.TRACE[2025-08-30 16:01:54.311][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=209892).
biodb.DEBUG[2025-08-30 16:01:54.648][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-08-30 16:01:54.653][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/7a3362365076d47cdf0955cccdd37bcf.content"
biodb.TRACE[2025-08-30 16:01:54.660][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/7a3362365076d47cdf0955cccdd37bcf.request"
biodb.TRACE[2025-08-30 16:01:54.665][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/209892.xml"
biodb.DEBUG[2025-08-30 16:01:54.668][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-08-30 16:01:54.671][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-30 16:01:54.674][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-30 16:01:54.677][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:01:54.679][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:01:54.682][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:01:54.691][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:01:54.693][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:01:54.694][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:01:54.696][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:01:54.700][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:01:54.702][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:01:54.704][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:54.705][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:54.707][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:01:54.709][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:01:54.710][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:54.711][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:54.713][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:01:54.715][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:01:54.716][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:54.717][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:54.719][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:01:54.720][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:01:54.721][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:54.722][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:54.724][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:01:54.725][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:01:54.726][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:54.727][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:54.729][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:01:54.730][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:01:54.731][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:54.732][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:54.733][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:01:54.734][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:01:54.735][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:54.736][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:54.737][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:01:54.738][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:01:54.739][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:54.740][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:54.741][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:01:54.742][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:01:54.743][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:54.744][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:54.745][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:01:54.753][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:01:54.754][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:54.755][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:54.756][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:01:54.757][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:01:54.758][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:54.759][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:54.760][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:01:54.761][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:01:54.762][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:54.763][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:54.764][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:01:54.765][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:01:54.766][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:54.767][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:54.768][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:01:54.769][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:01:54.770][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:54.771][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:54.772][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:01:54.773][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:01:54.774][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:54.775][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:54.776][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:01:54.777][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:01:54.778][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:54.779][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:54.780][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:01:54.781][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:01:54.782][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:54.783][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:54.784][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:01:54.785][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:01:54.786][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:54.787][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:54.788][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:01:54.789][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:01:54.790][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:54.791][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:54.792][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:01:54.793][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:01:54.794][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:54.795][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:54.796][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:01:54.797][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:01:54.798][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:54.799][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:54.800][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:01:54.801][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:01:54.802][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:54.803][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:54.804][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:01:54.805][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:01:54.806][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:54.806][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:54.807][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:01:54.808][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:01:54.809][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:54.810][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:54.811][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:01:54.812][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:01:54.813][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:54.814][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:54.815][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:01:54.816][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:01:54.817][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:54.818][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:54.819][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:01:54.820][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:01:54.821][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:54.822][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:54.823][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:01:54.824][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:01:54.825][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:54.825][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:54.827][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:01:54.828][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:01:54.829][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:54.829][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:54.830][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:01:54.831][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:01:54.832][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:54.833][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:54.834][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:01:54.835][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:01:54.836][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:54.837][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:01:54.838][self$createEntryFromContent] Accession numbers: 209892.
biodb.TRACE[2025-08-30 16:01:54.843][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:01:54.844][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:01:54.845][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:54.846][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:54.847][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:01:54.848][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:01:54.849][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:54.850][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:54.851][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:01:54.851][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:01:54.852][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:54.853][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:01:54.869][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-08-30 16:01:54.872][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-08-30 16:01:54.873][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2025-08-30 16:01:54.875][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-08-30 16:01:54.876][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.DEBUG[2025-08-30 16:01:54.879][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:01:54.879][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:01:54.880][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:01:54.884][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:01:54.885][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:01:54.886][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:01:54.887][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:01:54.888][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:01:54.889][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:01:54.890][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:54.891][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:54.892][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:01:54.893][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:01:54.893][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:54.894][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:54.895][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:01:54.896][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:01:54.897][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:54.898][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:01:54.899][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:01:54.900][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:01:54.901][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:01:54.905][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:01:54.906][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:01:54.906][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:01:54.907][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:01:54.908][private$loadEntries] Creating entries from ids [1]: "26747".
biodb.DEBUG[2025-08-30 16:01:54.909][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-08-30 16:01:54.911][cch$loadFileContent] Trying to load 1 files from cache: [1]: "26747".
biodb.TRACE[2025-08-30 16:01:54.912][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-08-30 16:01:54.913][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-08-30 16:01:54.914][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-30 16:01:54.915][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-08-30 16:01:54.916][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-08-30 16:01:54.917][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-08-30 16:01:54.919][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:01:54.920][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:01:54.921][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:01:54.925][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:01:54.926][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:01:54.927][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:01:54.927][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:01:54.933][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=26747".
biodb.DEBUG[2025-08-30 16:01:54.935][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-08-30 16:01:54.936][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-08-30 16:01:54.937][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=26747".
biodb.TRACE[2025-08-30 16:01:55.275][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=26747).
biodb.DEBUG[2025-08-30 16:01:55.632][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-08-30 16:01:55.635][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/462a35453014388bd90df1c9e4ade520.content"
biodb.TRACE[2025-08-30 16:01:55.639][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/462a35453014388bd90df1c9e4ade520.request"
biodb.TRACE[2025-08-30 16:01:55.642][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/26747.xml"
biodb.DEBUG[2025-08-30 16:01:55.643][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-08-30 16:01:55.645][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-30 16:01:55.646][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-30 16:01:55.648][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:01:55.649][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:01:55.650][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:01:55.656][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:01:55.657][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:01:55.658][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:01:55.659][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:01:55.662][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:01:55.663][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:01:55.664][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:55.665][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:55.667][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:01:55.668][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:01:55.669][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:55.671][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:55.672][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:01:55.673][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:01:55.674][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:55.676][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:55.677][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:01:55.678][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:01:55.680][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:55.681][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:55.682][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:01:55.684][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:01:55.685][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:55.686][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:55.687][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:01:55.688][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:01:55.689][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:55.690][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:55.691][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:01:55.693][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:01:55.694][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:55.694][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:55.696][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:01:55.697][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:01:55.698][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:55.699][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:55.700][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:01:55.701][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:01:55.702][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:55.703][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:55.704][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:01:55.705][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:01:55.706][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:55.707][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:55.708][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:01:55.709][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:01:55.710][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:55.711][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:55.712][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:01:55.713][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:01:55.714][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:55.715][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:55.716][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:01:55.717][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:01:55.718][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:55.719][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:55.720][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:01:55.721][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:01:55.722][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:55.723][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:55.730][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:01:55.732][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:01:55.733][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:55.734][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:55.735][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:01:55.736][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:01:55.737][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:55.738][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:55.739][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:01:55.740][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:01:55.741][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:55.742][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:55.742][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:01:55.743][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:01:55.744][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:55.745][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:55.746][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:01:55.747][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:01:55.748][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:55.749][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:55.750][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:01:55.751][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:01:55.752][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:55.753][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:55.754][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:01:55.755][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:01:55.756][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:55.757][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:55.758][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:01:55.759][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:01:55.760][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:55.761][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:55.762][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:01:55.763][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:01:55.764][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:55.765][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:55.766][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:01:55.767][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:01:55.767][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:55.768][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:01:55.769][self$createEntryFromContent] Accession numbers: 26747.
biodb.TRACE[2025-08-30 16:01:55.774][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:01:55.776][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:01:55.778][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:55.779][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:55.780][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:01:55.781][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:01:55.782][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:55.783][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:55.784][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:01:55.785][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:01:55.787][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:55.788][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:55.789][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:01:55.790][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:01:55.791][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:55.792][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:55.793][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:01:55.794][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:01:55.795][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:55.796][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:01:55.798][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:01:55.799][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:01:55.800][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:01:55.806][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:01:55.807][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:01:55.808][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:01:55.809][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:01:55.811][private$loadEntries] Creating entries from ids [1]: "59285".
biodb.DEBUG[2025-08-30 16:01:55.812][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-08-30 16:01:55.814][cch$loadFileContent] Trying to load 1 files from cache: [1]: "59285".
biodb.TRACE[2025-08-30 16:01:55.815][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-08-30 16:01:55.816][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-08-30 16:01:55.817][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-30 16:01:55.819][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-08-30 16:01:55.820][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-08-30 16:01:55.821][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-08-30 16:01:55.824][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:01:55.825][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:01:55.826][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:01:55.831][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:01:55.846][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:01:55.847][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:01:55.848][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:01:55.849][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=59285".
biodb.DEBUG[2025-08-30 16:01:55.852][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-08-30 16:01:55.853][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-08-30 16:01:55.854][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=59285".
biodb.TRACE[2025-08-30 16:01:56.195][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=59285).
biodb.DEBUG[2025-08-30 16:01:56.777][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-08-30 16:01:56.780][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/a390fa120be311b7c431851d8d66d5ac.content"
biodb.TRACE[2025-08-30 16:01:56.784][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/a390fa120be311b7c431851d8d66d5ac.request"
biodb.TRACE[2025-08-30 16:01:56.787][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/59285.xml"
biodb.DEBUG[2025-08-30 16:01:56.789][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-08-30 16:01:56.791][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-30 16:01:56.792][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-30 16:01:56.795][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:01:56.796][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:01:56.797][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:01:56.803][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:01:56.804][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:01:56.805][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:01:56.807][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:01:56.810][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:01:56.811][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:01:56.812][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:56.814][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:56.815][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:01:56.817][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:01:56.818][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:56.819][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:56.821][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:01:56.822][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:01:56.823][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:56.824][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:56.826][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:01:56.827][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:01:56.828][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:56.829][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:56.831][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:01:56.832][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:01:56.833][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:56.834][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:56.835][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:01:56.836][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:01:56.837][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:56.838][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:56.839][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:01:56.841][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:01:56.841][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:56.842][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:56.844][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:01:56.845][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:01:56.846][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:56.846][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:56.848][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:01:56.849][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:01:56.850][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:56.851][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:56.852][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:01:56.853][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:01:56.854][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:56.854][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:56.856][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:01:56.857][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:01:56.858][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:56.859][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:56.860][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:01:56.861][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:01:56.862][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:56.863][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:56.864][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:01:56.865][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:01:56.866][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:56.867][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:56.868][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:01:56.877][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:01:56.878][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:56.879][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:56.880][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:01:56.881][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:01:56.882][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:56.883][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:56.884][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:01:56.885][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:01:56.885][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:56.886][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:56.887][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:01:56.888][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:01:56.889][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:56.890][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:56.891][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:01:56.892][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:01:56.893][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:56.894][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:56.895][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:01:56.896][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:01:56.897][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:56.898][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:56.899][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:01:56.900][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:01:56.901][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:56.902][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:56.903][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:01:56.904][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:01:56.905][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:56.906][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:56.907][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:01:56.908][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:01:56.909][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:56.910][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:56.911][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:01:56.912][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:01:56.913][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:56.914][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:56.915][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:01:56.916][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:01:56.916][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:56.917][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:01:56.918][self$createEntryFromContent] Accession numbers: 59285.
biodb.TRACE[2025-08-30 16:01:56.919][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:01:56.920][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:01:56.921][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:56.922][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:56.923][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:01:56.924][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:01:56.925][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:56.926][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:56.927][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:01:56.928][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:01:56.929][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:56.930][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:56.931][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:01:56.932][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:01:56.933][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:56.934][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:56.935][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:01:56.936][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:01:56.937][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:56.938][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:01:56.939][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:01:56.940][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:01:56.941][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:01:56.945][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:01:56.946][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:01:56.947][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:01:56.948][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:01:56.949][private$loadEntries] Creating entries from ids [1]: "75174".
biodb.DEBUG[2025-08-30 16:01:56.950][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-08-30 16:01:56.951][cch$loadFileContent] Trying to load 1 files from cache: [1]: "75174".
biodb.TRACE[2025-08-30 16:01:56.952][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-08-30 16:01:56.953][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-08-30 16:01:56.954][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-30 16:01:56.955][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-08-30 16:01:56.956][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-08-30 16:01:56.957][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-08-30 16:01:56.960][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:01:56.961][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:01:56.962][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:01:56.970][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:01:56.971][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:01:56.972][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:01:56.973][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:01:56.974][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=75174".
biodb.DEBUG[2025-08-30 16:01:56.976][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-08-30 16:01:56.977][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-08-30 16:01:56.979][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=75174".
biodb.TRACE[2025-08-30 16:01:57.525][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=75174).
biodb.DEBUG[2025-08-30 16:01:57.867][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-08-30 16:01:57.872][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/379ec57940c7734782bc4c07c7e15a9b.content"
biodb.TRACE[2025-08-30 16:01:57.879][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/379ec57940c7734782bc4c07c7e15a9b.request"
biodb.TRACE[2025-08-30 16:01:57.885][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/75174.xml"
biodb.DEBUG[2025-08-30 16:01:57.888][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-08-30 16:01:57.891][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-30 16:01:57.893][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-30 16:01:57.897][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:01:57.899][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:01:57.901][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:01:57.911][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:01:57.912][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:01:57.914][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:01:57.916][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:01:57.920][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:01:57.921][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:01:57.923][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:57.925][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:57.926][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:01:57.928][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:01:57.929][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:57.931][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:57.932][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:01:57.934][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:01:57.935][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:57.936][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:57.938][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:01:57.939][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:01:57.941][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:57.942][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:57.943][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:01:57.945][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:01:57.946][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:57.947][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:57.948][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:01:57.949][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:01:57.950][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:57.951][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:57.953][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:01:57.954][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:01:57.955][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:57.956][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:57.957][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:01:57.958][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:01:57.959][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:57.960][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:57.961][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:01:57.962][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:01:57.963][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:57.964][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:57.965][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:01:57.966][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:01:57.967][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:57.968][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:57.970][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:01:57.971][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:01:57.972][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:57.973][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:57.974][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:01:57.975][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:01:57.976][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:57.977][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:57.986][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:01:57.987][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:01:57.988][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:57.989][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:57.990][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:01:57.991][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:01:57.992][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:57.992][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:57.994][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:01:57.995][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:01:57.996][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:57.996][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:57.997][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:01:57.998][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:01:57.999][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:58.000][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:58.001][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:01:58.002][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:01:58.003][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:58.004][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:58.005][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:01:58.006][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:01:58.007][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:58.008][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:58.009][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:01:58.010][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:01:58.011][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:58.012][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:58.013][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:01:58.014][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:01:58.015][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:58.016][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:58.017][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:01:58.018][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:01:58.019][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:58.019][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:58.021][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:01:58.022][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:01:58.022][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:58.023][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:58.024][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:01:58.025][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:01:58.026][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:58.027][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:58.028][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:01:58.029][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:01:58.030][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:58.031][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:01:58.032][self$createEntryFromContent] Accession numbers: 75174.
biodb.TRACE[2025-08-30 16:01:58.033][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:01:58.034][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:01:58.035][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:58.036][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:58.037][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:01:58.038][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:01:58.039][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:58.040][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:58.041][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:01:58.042][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:01:58.043][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:58.044][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:58.045][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:01:58.046][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:01:58.046][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:58.047][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:58.048][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:01:58.049][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:01:58.050][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:58.051][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:01:58.052][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:01:58.053][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:01:58.054][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:01:58.058][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:01:58.059][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:01:58.060][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:01:58.061][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:01:58.062][private$loadEntries] Creating entries from ids [1]: "15441".
biodb.DEBUG[2025-08-30 16:01:58.063][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-08-30 16:01:58.065][cch$loadFileContent] Trying to load 1 files from cache: [1]: "15441".
biodb.TRACE[2025-08-30 16:01:58.066][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-08-30 16:01:58.067][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-08-30 16:01:58.068][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-30 16:01:58.069][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-08-30 16:01:58.070][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-08-30 16:01:58.075][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-08-30 16:01:58.077][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:01:58.078][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:01:58.079][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:01:58.083][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:01:58.084][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:01:58.085][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:01:58.086][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:01:58.087][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15441".
biodb.DEBUG[2025-08-30 16:01:58.089][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-08-30 16:01:58.090][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-08-30 16:01:58.091][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15441".
biodb.TRACE[2025-08-30 16:01:58.443][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15441).
biodb.DEBUG[2025-08-30 16:01:58.795][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-08-30 16:01:58.799][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/a6d4f93841bd82da498852b3a0a5692d.content"
biodb.TRACE[2025-08-30 16:01:58.807][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/a6d4f93841bd82da498852b3a0a5692d.request"
biodb.TRACE[2025-08-30 16:01:58.812][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/15441.xml"
biodb.DEBUG[2025-08-30 16:01:58.815][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-08-30 16:01:58.818][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-30 16:01:58.821][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-30 16:01:58.824][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:01:58.827][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:01:58.829][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:01:58.838][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:01:58.839][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:01:58.841][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:01:58.843][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:01:58.847][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:01:58.849][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:01:58.850][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:58.852][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:58.854][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:01:58.855][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:01:58.857][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:58.858][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:58.859][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:01:58.861][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:01:58.862][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:58.863][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:58.865][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:01:58.866][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:01:58.867][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:58.869][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:58.870][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:01:58.871][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:01:58.872][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:58.874][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:58.875][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:01:58.876][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:01:58.878][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:58.879][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:58.880][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:01:58.881][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:01:58.882][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:58.883][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:58.884][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:01:58.885][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:01:58.886][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:58.887][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:58.888][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:01:58.889][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:01:58.890][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:58.891][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:58.892][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:01:58.893][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:01:58.894][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:58.895][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:58.896][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:01:58.897][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:01:58.898][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:58.899][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:58.907][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:01:58.909][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:01:58.909][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:58.910][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:58.911][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:01:58.912][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:01:58.913][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:58.914][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:58.915][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:01:58.916][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:01:58.917][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:58.918][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:58.919][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:01:58.920][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:01:58.921][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:58.922][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:58.923][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:01:58.924][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:01:58.925][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:58.926][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:58.927][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:01:58.928][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:01:58.929][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:58.930][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:58.931][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:01:58.932][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:01:58.933][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:58.934][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:58.935][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:01:58.936][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:01:58.937][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:58.938][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:58.939][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:01:58.940][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:01:58.941][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:58.942][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:58.943][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:01:58.944][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:01:58.945][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:58.946][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:58.947][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:01:58.948][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:01:58.949][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:58.950][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:58.951][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:01:58.952][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:01:58.953][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:58.954][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:58.955][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:01:58.956][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:01:58.957][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:58.958][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:58.959][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:01:58.960][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:01:58.961][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:58.961][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:58.962][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:01:58.963][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:01:58.964][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:58.965][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:58.966][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:01:58.967][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:01:58.968][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:58.969][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:58.970][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:01:58.971][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:01:58.972][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:58.973][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:58.974][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:01:58.975][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:01:58.976][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:58.977][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:58.978][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:01:58.979][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:01:58.980][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:58.981][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:58.982][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:01:58.983][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:01:58.984][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:58.984][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:58.985][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:01:58.986][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:01:58.987][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:58.988][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:01:58.989][self$createEntryFromContent] Accession numbers: 15441.
biodb.TRACE[2025-08-30 16:01:58.990][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:01:59.011][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:01:59.012][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:59.013][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:59.015][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:01:59.016][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:01:59.017][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:59.018][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:59.018][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:01:59.020][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:01:59.020][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:59.021][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:01:59.022][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:01:59.023][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:01:59.024][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:01:59.028][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:01:59.029][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:01:59.030][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:01:59.031][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:01:59.032][private$loadEntries] Creating entries from ids [1]: "15442".
biodb.DEBUG[2025-08-30 16:01:59.033][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-08-30 16:01:59.035][cch$loadFileContent] Trying to load 1 files from cache: [1]: "15442".
biodb.TRACE[2025-08-30 16:01:59.036][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-08-30 16:01:59.037][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-08-30 16:01:59.038][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-30 16:01:59.039][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-08-30 16:01:59.040][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-08-30 16:01:59.041][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-08-30 16:01:59.043][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:01:59.044][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:01:59.045][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:01:59.049][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:01:59.050][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:01:59.051][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:01:59.052][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:01:59.053][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15442".
biodb.DEBUG[2025-08-30 16:01:59.056][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-08-30 16:01:59.057][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-08-30 16:01:59.058][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15442".
biodb.TRACE[2025-08-30 16:01:59.410][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15442).
biodb.DEBUG[2025-08-30 16:01:59.757][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-08-30 16:01:59.762][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/4c2c678eeeeb53d29ca6f3663ebee297.content"
biodb.TRACE[2025-08-30 16:01:59.769][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/4c2c678eeeeb53d29ca6f3663ebee297.request"
biodb.TRACE[2025-08-30 16:01:59.774][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/15442.xml"
biodb.DEBUG[2025-08-30 16:01:59.777][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-08-30 16:01:59.780][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-30 16:01:59.783][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-30 16:01:59.786][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:01:59.788][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:01:59.790][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:01:59.800][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:01:59.802][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:01:59.803][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:01:59.805][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:01:59.809][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:01:59.811][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:01:59.812][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:59.814][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:59.816][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:01:59.817][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:01:59.819][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:59.820][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:59.822][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:01:59.823][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:01:59.824][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:59.826][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:59.827][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:01:59.829][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:01:59.830][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:59.831][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:59.832][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:01:59.841][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:01:59.843][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:59.844][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:59.845][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:01:59.846][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:01:59.847][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:59.848][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:59.849][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:01:59.850][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:01:59.851][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:59.852][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:59.853][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:01:59.854][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:01:59.855][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:59.856][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:59.857][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:01:59.858][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:01:59.859][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:59.860][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:59.861][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:01:59.862][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:01:59.863][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:59.864][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:59.865][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:01:59.866][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:01:59.867][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:59.868][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:59.869][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:01:59.870][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:01:59.871][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:59.872][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:59.873][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:01:59.874][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:01:59.875][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:59.876][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:59.877][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:01:59.878][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:01:59.879][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:59.880][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:59.881][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:01:59.882][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:01:59.883][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:59.884][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:59.885][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:01:59.886][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:01:59.887][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:59.888][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:59.889][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:01:59.890][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:01:59.890][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:59.891][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:59.893][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:01:59.894][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:01:59.895][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:59.895][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:59.896][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:01:59.898][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:01:59.898][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:59.899][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:59.900][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:01:59.901][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:01:59.902][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:59.903][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:59.904][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:01:59.905][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:01:59.906][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:59.907][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:59.908][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:01:59.909][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:01:59.910][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:59.911][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:59.912][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:01:59.913][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:01:59.914][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:59.915][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:59.916][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:01:59.917][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:01:59.918][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:59.919][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:59.920][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:01:59.921][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:01:59.922][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:59.923][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:59.924][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:01:59.925][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:01:59.926][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:59.926][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:59.927][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:01:59.928][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:01:59.933][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:59.934][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:59.935][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:01:59.937][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:01:59.938][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:59.938][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:59.939][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:01:59.940][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:01:59.941][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:59.942][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:59.943][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:01:59.944][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:01:59.945][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:59.946][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:59.947][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:01:59.948][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:01:59.949][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:59.950][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:59.951][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:01:59.952][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:01:59.953][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:59.954][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:01:59.955][self$createEntryFromContent] Accession numbers: 15442.
biodb.TRACE[2025-08-30 16:01:59.956][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:01:59.957][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:01:59.958][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:59.959][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:59.960][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:01:59.961][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:01:59.962][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:59.962][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:01:59.963][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:01:59.964][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:01:59.965][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:01:59.966][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:01:59.967][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:01:59.968][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:01:59.969][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:01:59.973][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:01:59.974][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:01:59.975][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:01:59.976][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:01:59.977][private$loadEntries] Creating entries from ids [1]: "57310".
biodb.DEBUG[2025-08-30 16:01:59.978][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-08-30 16:01:59.979][cch$loadFileContent] Trying to load 1 files from cache: [1]: "57310".
biodb.TRACE[2025-08-30 16:01:59.981][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-08-30 16:01:59.982][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-08-30 16:01:59.983][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-30 16:01:59.984][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-08-30 16:01:59.985][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-08-30 16:01:59.985][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-08-30 16:01:59.988][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:01:59.989][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:01:59.990][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:01:59.994][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:01:59.995][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:01:59.996][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:01:59.996][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:01:59.998][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=57310".
biodb.DEBUG[2025-08-30 16:02:00.000][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-08-30 16:02:00.001][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-08-30 16:02:00.002][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=57310".
biodb.TRACE[2025-08-30 16:02:00.344][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=57310).
biodb.DEBUG[2025-08-30 16:02:00.685][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-08-30 16:02:00.690][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/e616043f98d9256021d0f5715e02d37b.content"
biodb.TRACE[2025-08-30 16:02:00.697][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/e616043f98d9256021d0f5715e02d37b.request"
biodb.TRACE[2025-08-30 16:02:00.703][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/57310.xml"
biodb.DEBUG[2025-08-30 16:02:00.706][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-08-30 16:02:00.709][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-30 16:02:00.711][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-30 16:02:00.715][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:00.717][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:00.719][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:00.739][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:00.741][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:00.743][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:00.744][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:02:00.747][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:00.749][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:00.750][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:00.751][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:00.753][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:00.754][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:00.756][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:00.757][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:00.758][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:02:00.760][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:02:00.761][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:00.762][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:00.763][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:02:00.765][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:02:00.766][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:00.767][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:00.768][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:02:00.769][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:02:00.770][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:00.771][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:00.772][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:02:00.773][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:02:00.774][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:00.775][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:00.776][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:02:00.777][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:02:00.778][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:00.779][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:00.781][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:02:00.782][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:02:00.782][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:00.783][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:00.784][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:02:00.785][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:02:00.786][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:00.787][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:00.788][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:02:00.789][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:02:00.790][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:00.791][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:00.792][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:02:00.793][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:02:00.794][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:00.795][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:00.796][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:02:00.797][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:00.798][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:00.799][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:00.800][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:02:00.801][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:00.802][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:00.803][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:00.804][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:00.805][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:00.806][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:00.807][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:00.808][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:00.809][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:00.810][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:00.811][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:00.812][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:02:00.813][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:02:00.814][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:00.815][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:00.816][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:02:00.817][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:02:00.818][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:00.819][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:00.820][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:02:00.821][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:02:00.822][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:00.823][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:00.824][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:02:00.825][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:02:00.826][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:00.827][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:00.828][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:02:00.829][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:02:00.830][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:00.831][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:00.832][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:02:00.837][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:02:00.838][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:00.839][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:00.841][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:00.842][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:00.842][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:00.843][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:00.844][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:00.845][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:00.846][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:00.847][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:00.848][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:00.849][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:00.850][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:00.851][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:00.852][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:00.853][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:00.854][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:00.855][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:00.856][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:00.857][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:00.858][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:00.859][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:00.860][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:00.861][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:00.861][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:00.862][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:00.863][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:00.864][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:00.865][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:00.866][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:00.867][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:00.868][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:00.869][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:00.870][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:00.871][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:00.872][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:00.873][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:00.874][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:00.875][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:00.876][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:00.877][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:00.878][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:00.879][self$createEntryFromContent] Accession numbers: 57310.
biodb.TRACE[2025-08-30 16:02:00.880][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:00.881][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:00.882][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:00.883][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:00.884][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:00.885][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:00.886][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:00.887][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:00.888][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:00.889][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:00.890][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:00.890][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:00.891][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:00.892][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:00.893][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:00.897][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:00.898][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:00.899][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:00.900][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:02:00.901][private$loadEntries] Creating entries from ids [1]: "66216".
biodb.DEBUG[2025-08-30 16:02:00.902][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-08-30 16:02:00.904][cch$loadFileContent] Trying to load 1 files from cache: [1]: "66216".
biodb.TRACE[2025-08-30 16:02:00.905][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-08-30 16:02:00.906][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-08-30 16:02:00.907][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-30 16:02:00.908][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-08-30 16:02:00.909][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-08-30 16:02:00.910][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-08-30 16:02:00.912][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:00.913][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:00.914][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:00.918][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:00.919][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:00.920][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:00.921][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:02:00.922][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=66216".
biodb.DEBUG[2025-08-30 16:02:00.929][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-08-30 16:02:00.930][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-08-30 16:02:00.931][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=66216".
biodb.TRACE[2025-08-30 16:02:01.273][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=66216).
biodb.DEBUG[2025-08-30 16:02:01.619][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-08-30 16:02:01.624][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/a59039263bdeb010b063b31b1dcdd109.content"
biodb.TRACE[2025-08-30 16:02:01.631][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/a59039263bdeb010b063b31b1dcdd109.request"
biodb.TRACE[2025-08-30 16:02:01.636][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/66216.xml"
biodb.DEBUG[2025-08-30 16:02:01.639][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-08-30 16:02:01.642][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-30 16:02:01.645][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-30 16:02:01.648][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:01.650][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:01.653][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:01.662][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:01.664][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:01.666][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:01.668][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:02:01.671][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:01.673][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:01.675][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:01.676][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:01.678][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:01.680][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:01.681][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:01.682][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:01.684][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:02:01.685][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:02:01.687][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:01.688][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:01.690][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:02:01.691][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:02:01.692][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:01.693][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:01.695][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:02:01.696][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:02:01.697][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:01.698][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:01.699][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:02:01.701][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:02:01.702][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:01.703][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:01.704][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:02:01.705][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:02:01.706][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:01.707][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:01.708][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:02:01.709][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:02:01.710][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:01.711][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:01.712][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:02:01.713][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:02:01.714][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:01.715][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:01.716][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:02:01.717][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:02:01.718][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:01.719][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:01.720][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:02:01.721][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:02:01.722][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:01.723][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:01.724][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:02:01.725][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:01.726][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:01.727][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:01.728][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:02:01.729][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:01.730][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:01.731][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:01.732][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:01.733][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:01.734][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:01.735][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:01.736][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:01.737][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:01.738][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:01.739][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:01.747][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:02:01.748][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:02:01.749][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:01.750][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:01.752][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:02:01.753][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:02:01.754][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:01.755][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:01.756][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:02:01.757][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:02:01.757][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:01.758][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:01.759][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:02:01.760][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:02:01.761][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:01.762][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:01.763][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:02:01.764][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:02:01.765][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:01.766][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:01.767][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:02:01.768][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:02:01.769][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:01.770][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:01.771][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:01.772][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:01.773][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:01.774][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:01.775][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:01.776][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:01.777][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:01.778][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:01.779][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:01.780][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:01.781][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:01.782][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:01.783][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:01.784][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:01.785][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:01.785][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:01.786][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:01.787][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:01.788][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:01.789][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:01.790][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:01.791][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:01.792][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:01.793][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:01.794][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:01.795][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:01.796][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:01.797][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:01.798][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:01.799][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:01.800][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:01.801][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:01.802][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:01.803][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:01.804][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:01.805][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:01.806][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:01.807][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:01.807][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:01.808][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:01.809][self$createEntryFromContent] Accession numbers: 66216.
biodb.TRACE[2025-08-30 16:02:01.810][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:01.811][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:01.812][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:01.813][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:01.814][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:01.815][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:01.816][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:01.817][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:01.818][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:01.819][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:01.820][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:01.821][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:01.822][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:01.823][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:01.823][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:01.828][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:01.829][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:01.829][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:01.830][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:02:01.831][private$loadEntries] Creating entries from ids [1]: "70860".
biodb.DEBUG[2025-08-30 16:02:01.832][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-08-30 16:02:01.838][cch$loadFileContent] Trying to load 1 files from cache: [1]: "70860".
biodb.TRACE[2025-08-30 16:02:01.839][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-08-30 16:02:01.840][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-08-30 16:02:01.841][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-30 16:02:01.842][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-08-30 16:02:01.843][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-08-30 16:02:01.844][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-08-30 16:02:01.847][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:01.848][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:01.848][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:01.852][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:01.853][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:01.854][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:01.855][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:02:01.856][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=70860".
biodb.DEBUG[2025-08-30 16:02:01.859][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-08-30 16:02:01.860][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-08-30 16:02:01.861][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=70860".
biodb.TRACE[2025-08-30 16:02:02.233][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=70860).
biodb.DEBUG[2025-08-30 16:02:02.577][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-08-30 16:02:02.582][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/02f38adb5262f39c1de7b27972a97d3a.content"
biodb.TRACE[2025-08-30 16:02:02.589][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/02f38adb5262f39c1de7b27972a97d3a.request"
biodb.TRACE[2025-08-30 16:02:02.594][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/70860.xml"
biodb.DEBUG[2025-08-30 16:02:02.598][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-08-30 16:02:02.600][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-30 16:02:02.603][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-30 16:02:02.607][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:02.609][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:02.611][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:02.620][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:02.622][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:02.624][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:02.625][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:02:02.629][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:02.631][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:02.632][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:02.634][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:02.636][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:02.637][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:02.639][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:02.640][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:02.642][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:02:02.643][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:02:02.644][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:02.646][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:02.647][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:02:02.649][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:02:02.650][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:02.651][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:02.652][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:02:02.654][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:02:02.655][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:02.656][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:02.657][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:02:02.658][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:02:02.659][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:02.660][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:02.662][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:02:02.663][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:02:02.664][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:02.665][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:02.666][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:02:02.667][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:02:02.668][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:02.669][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:02.670][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:02:02.671][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:02:02.672][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:02.673][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:02.674][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:02:02.675][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:02:02.676][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:02.684][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:02.685][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:02:02.687][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:02:02.687][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:02.688][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:02.690][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:02:02.691][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:02.691][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:02.692][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:02.693][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:02:02.694][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:02.695][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:02.696][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:02.697][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:02.698][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:02.699][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:02.700][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:02.701][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:02.702][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:02.703][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:02.704][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:02.705][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:02:02.706][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:02:02.707][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:02.708][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:02.709][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:02:02.710][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:02:02.711][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:02.712][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:02.713][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:02:02.714][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:02:02.715][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:02.716][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:02.717][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:02:02.718][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:02:02.719][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:02.720][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:02.721][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:02:02.722][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:02:02.723][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:02.724][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:02.725][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:02:02.726][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:02:02.727][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:02.728][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:02.729][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:02.730][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:02.731][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:02.732][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:02.733][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:02.734][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:02.735][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:02.735][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:02.736][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:02.737][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:02.738][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:02.739][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:02.740][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:02.741][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:02.742][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:02.743][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:02.744][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:02.745][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:02.746][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:02.747][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:02.748][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:02.749][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:02.750][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:02.751][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:02.752][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:02.753][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:02.754][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:02.754][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:02.756][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:02.757][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:02.758][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:02.758][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:02.759][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:02.760][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:02.761][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:02.762][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:02.763][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:02.764][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:02.765][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:02.766][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:02.767][self$createEntryFromContent] Accession numbers: 70860.
biodb.TRACE[2025-08-30 16:02:02.768][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:02.769][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:02.774][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:02.775][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:02.776][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:02.777][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:02.778][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:02.779][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:02.780][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:02.781][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:02.782][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:02.783][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:02.784][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:02.785][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:02.786][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:02.790][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:02.791][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:02.792][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:02.793][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:02:02.794][private$loadEntries] Creating entries from ids [1]: "70861".
biodb.DEBUG[2025-08-30 16:02:02.795][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-08-30 16:02:02.796][cch$loadFileContent] Trying to load 1 files from cache: [1]: "70861".
biodb.TRACE[2025-08-30 16:02:02.797][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-08-30 16:02:02.798][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-08-30 16:02:02.799][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-30 16:02:02.800][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-08-30 16:02:02.801][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-08-30 16:02:02.802][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-08-30 16:02:02.805][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:02.806][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:02.806][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:02.811][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:02.811][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:02.812][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:02.813][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:02:02.814][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=70861".
biodb.DEBUG[2025-08-30 16:02:02.817][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-08-30 16:02:02.818][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-08-30 16:02:02.819][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=70861".
biodb.TRACE[2025-08-30 16:02:03.157][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=70861).
biodb.DEBUG[2025-08-30 16:02:03.499][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-08-30 16:02:03.504][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/2469ce985de4364ded27031736786fb4.content"
biodb.TRACE[2025-08-30 16:02:03.511][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/2469ce985de4364ded27031736786fb4.request"
biodb.TRACE[2025-08-30 16:02:03.516][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/70861.xml"
biodb.DEBUG[2025-08-30 16:02:03.520][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-08-30 16:02:03.522][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-30 16:02:03.525][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-30 16:02:03.529][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:03.531][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:03.533][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:03.542][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:03.544][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:03.546][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:03.547][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:02:03.552][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:03.553][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:03.555][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:03.557][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:03.558][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:03.560][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:03.561][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:03.563][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:03.564][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:02:03.566][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:02:03.567][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:03.568][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:03.570][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:02:03.571][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:02:03.573][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:03.574][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:03.583][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:02:03.585][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:02:03.587][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:03.588][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:03.589][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:02:03.590][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:02:03.591][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:03.592][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:03.593][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:02:03.594][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:02:03.595][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:03.596][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:03.597][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:02:03.598][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:02:03.599][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:03.600][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:03.601][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:02:03.602][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:02:03.603][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:03.604][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:03.605][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:02:03.606][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:02:03.607][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:03.608][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:03.609][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:02:03.610][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:02:03.611][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:03.612][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:03.613][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:02:03.614][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:03.615][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:03.616][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:03.617][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:02:03.618][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:03.619][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:03.620][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:03.621][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:03.622][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:03.623][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:03.624][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:03.625][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:03.626][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:03.627][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:03.628][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:03.629][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:02:03.630][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:02:03.631][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:03.632][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:03.634][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:02:03.635][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:02:03.635][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:03.636][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:03.637][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:02:03.638][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:02:03.639][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:03.640][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:03.641][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:02:03.642][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:02:03.643][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:03.644][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:03.645][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:02:03.646][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:02:03.647][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:03.648][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:03.649][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:02:03.650][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:02:03.651][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:03.652][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:03.653][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:03.654][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:03.655][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:03.656][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:03.657][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:03.658][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:03.659][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:03.660][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:03.661][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:03.662][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:03.663][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:03.664][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:03.665][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:03.666][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:03.667][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:03.668][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:03.669][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:03.670][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:03.670][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:03.671][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:03.676][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:03.678][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:03.679][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:03.680][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:03.681][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:03.682][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:03.682][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:03.683][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:03.684][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:03.685][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:03.686][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:03.687][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:03.688][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:03.689][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:03.690][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:03.691][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:03.692][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:03.693][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:03.694][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:03.695][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:03.696][self$createEntryFromContent] Accession numbers: 70861.
biodb.TRACE[2025-08-30 16:02:03.697][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:03.698][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:03.699][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:03.700][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:03.701][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:03.702][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:03.703][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:03.704][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:03.705][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:03.706][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:03.706][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:03.707][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:03.708][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:03.709][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:03.710][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:03.714][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:03.715][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:03.716][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:03.717][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:02:03.718][private$loadEntries] Creating entries from ids [1]: "78662".
biodb.DEBUG[2025-08-30 16:02:03.719][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-08-30 16:02:03.721][cch$loadFileContent] Trying to load 1 files from cache: [1]: "78662".
biodb.TRACE[2025-08-30 16:02:03.722][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-08-30 16:02:03.723][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-08-30 16:02:03.724][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-30 16:02:03.725][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-08-30 16:02:03.726][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-08-30 16:02:03.727][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-08-30 16:02:03.729][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:03.730][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:03.731][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:03.735][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:03.736][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:03.737][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:03.738][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:02:03.739][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=78662".
biodb.DEBUG[2025-08-30 16:02:03.741][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-08-30 16:02:03.742][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-08-30 16:02:03.744][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=78662".
biodb.TRACE[2025-08-30 16:02:04.082][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=78662).
biodb.DEBUG[2025-08-30 16:02:04.427][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-08-30 16:02:04.432][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/f2a2164b6127ca54c00efe5984f5864a.content"
biodb.TRACE[2025-08-30 16:02:04.439][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/f2a2164b6127ca54c00efe5984f5864a.request"
biodb.TRACE[2025-08-30 16:02:04.445][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/78662.xml"
biodb.DEBUG[2025-08-30 16:02:04.448][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-08-30 16:02:04.451][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-30 16:02:04.453][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-30 16:02:04.457][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:04.459][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:04.461][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:04.481][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:04.483][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:04.485][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:04.486][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:02:04.489][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:04.491][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:04.492][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:04.493][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:04.495][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:04.496][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:04.497][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:04.499][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:04.500][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:02:04.501][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:02:04.502][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:04.504][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:04.505][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:02:04.506][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:02:04.507][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:04.508][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:04.510][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:02:04.511][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:02:04.512][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:04.513][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:04.514][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:02:04.515][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:02:04.516][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:04.517][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:04.518][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:02:04.519][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:02:04.520][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:04.521][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:04.522][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:02:04.523][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:02:04.524][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:04.525][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:04.526][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:02:04.527][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:02:04.528][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:04.529][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:04.530][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:02:04.531][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:02:04.532][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:04.533][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:04.534][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:02:04.535][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:02:04.536][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:04.537][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:04.538][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:02:04.539][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:04.540][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:04.541][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:04.542][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:02:04.543][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:04.544][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:04.545][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:04.546][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:04.547][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:04.548][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:04.549][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:04.550][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:04.551][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:04.552][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:04.553][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:04.554][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:02:04.555][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:02:04.556][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:04.557][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:04.558][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:02:04.559][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:02:04.560][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:04.561][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:04.562][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:02:04.563][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:02:04.564][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:04.565][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:04.566][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:02:04.567][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:02:04.568][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:04.569][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:04.570][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:02:04.571][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:02:04.572][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:04.573][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:04.578][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:02:04.579][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:02:04.581][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:04.582][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:04.583][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:04.584][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:04.585][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:04.586][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:04.587][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:04.588][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:04.588][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:04.589][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:04.590][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:04.591][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:04.592][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:04.593][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:04.594][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:04.595][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:04.596][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:04.597][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:04.598][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:04.599][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:04.600][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:04.601][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:04.602][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:04.603][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:04.604][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:04.605][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:04.606][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:04.607][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:04.608][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:04.609][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:04.610][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:04.611][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:04.612][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:04.613][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:04.614][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:04.615][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:04.616][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:04.617][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:04.617][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:04.619][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:04.619][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:04.620][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:04.621][self$createEntryFromContent] Accession numbers: 78662.
biodb.TRACE[2025-08-30 16:02:04.622][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:04.623][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:04.624][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:04.625][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:04.626][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:04.627][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:04.628][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:04.629][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:04.630][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:04.631][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:04.632][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:04.633][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:04.634][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:04.635][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:04.636][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:04.640][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:04.641][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:04.642][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:04.643][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:02:04.644][private$loadEntries] Creating entries from ids [1]: "85084".
biodb.DEBUG[2025-08-30 16:02:04.645][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-08-30 16:02:04.646][cch$loadFileContent] Trying to load 1 files from cache: [1]: "85084".
biodb.TRACE[2025-08-30 16:02:04.647][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-08-30 16:02:04.648][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-08-30 16:02:04.649][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-30 16:02:04.650][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-08-30 16:02:04.651][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-08-30 16:02:04.652][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-08-30 16:02:04.655][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:04.656][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:04.657][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:04.661][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:04.662][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:04.662][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:04.663][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:02:04.665][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=85084".
biodb.DEBUG[2025-08-30 16:02:04.671][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-08-30 16:02:04.672][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-08-30 16:02:04.674][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=85084".
biodb.TRACE[2025-08-30 16:02:05.009][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=85084).
biodb.DEBUG[2025-08-30 16:02:05.345][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-08-30 16:02:05.350][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/62216dc29cd0685dbac0a61545bda088.content"
biodb.TRACE[2025-08-30 16:02:05.357][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/62216dc29cd0685dbac0a61545bda088.request"
biodb.TRACE[2025-08-30 16:02:05.363][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/85084.xml"
biodb.DEBUG[2025-08-30 16:02:05.366][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-08-30 16:02:05.369][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-30 16:02:05.371][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-30 16:02:05.375][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:05.377][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:05.379][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:05.388][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:05.390][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:05.392][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:05.394][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:02:05.397][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:05.399][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:05.401][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:05.402][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:05.404][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:05.405][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:05.407][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:05.408][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:05.410][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:02:05.411][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:02:05.413][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:05.414][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:05.415][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:02:05.417][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:02:05.418][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:05.419][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:05.420][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:02:05.422][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:02:05.423][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:05.424][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:05.425][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:02:05.426][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:02:05.427][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:05.428][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:05.430][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:02:05.431][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:02:05.432][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:05.433][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:05.434][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:02:05.435][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:02:05.436][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:05.437][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:05.438][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:02:05.439][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:02:05.440][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:05.441][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:05.442][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:02:05.443][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:05.444][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:05.445][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:05.446][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:02:05.447][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:05.448][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:05.449][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:05.450][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:05.451][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:05.452][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:05.453][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:05.454][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:05.455][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:05.456][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:05.457][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:05.458][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:02:05.459][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:02:05.460][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:05.460][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:05.462][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:02:05.470][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:02:05.471][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:05.472][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:05.473][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:02:05.474][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:02:05.475][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:05.476][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:05.477][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:02:05.478][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:02:05.479][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:05.480][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:05.481][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:02:05.482][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:02:05.483][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:05.484][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:05.485][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:05.486][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:05.487][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:05.488][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:05.489][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:05.490][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:05.491][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:05.492][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:05.493][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:05.494][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:05.495][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:05.496][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:05.496][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:05.498][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:05.498][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:05.499][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:05.500][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:05.501][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:05.502][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:05.503][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:05.504][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:05.505][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:05.506][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:05.507][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:05.508][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:05.509][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:05.510][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:05.511][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:05.512][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:05.513][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:05.514][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:05.515][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:05.516][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:05.517][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:05.518][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:05.519][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:05.520][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:05.521][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:05.521][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:05.522][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:05.523][self$createEntryFromContent] Accession numbers: 85084.
biodb.TRACE[2025-08-30 16:02:05.524][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:05.525][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:05.526][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:05.527][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:05.528][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:05.529][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:05.530][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:05.531][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:05.532][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:05.533][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:05.534][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:05.535][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:05.536][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:05.537][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:05.537][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:05.542][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:05.543][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:05.543][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:05.544][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:02:05.545][private$loadEntries] Creating entries from ids [1]: "85086".
biodb.DEBUG[2025-08-30 16:02:05.546][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-08-30 16:02:05.548][cch$loadFileContent] Trying to load 1 files from cache: [1]: "85086".
biodb.TRACE[2025-08-30 16:02:05.549][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-08-30 16:02:05.550][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-08-30 16:02:05.551][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-30 16:02:05.552][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-08-30 16:02:05.553][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-08-30 16:02:05.554][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-08-30 16:02:05.561][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:05.562][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:05.562][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:05.567][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:05.567][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:05.568][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:05.569][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:02:05.570][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=85086".
biodb.DEBUG[2025-08-30 16:02:05.573][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-08-30 16:02:05.574][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-08-30 16:02:05.575][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=85086".
biodb.TRACE[2025-08-30 16:02:05.913][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=85086).
biodb.DEBUG[2025-08-30 16:02:06.247][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-08-30 16:02:06.251][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/cf3472363c4a7effe355d93315025f8b.content"
biodb.TRACE[2025-08-30 16:02:06.258][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/cf3472363c4a7effe355d93315025f8b.request"
biodb.TRACE[2025-08-30 16:02:06.263][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/85086.xml"
biodb.DEBUG[2025-08-30 16:02:06.266][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-08-30 16:02:06.268][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-30 16:02:06.271][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-30 16:02:06.274][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:06.276][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:06.278][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:06.287][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:06.289][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:06.290][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:06.292][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:02:06.296][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:06.298][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:06.299][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:06.301][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:06.303][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:06.304][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:06.306][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:06.307][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:06.308][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:02:06.310][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:02:06.311][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:06.313][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:06.314][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:02:06.315][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:02:06.317][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:06.318][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:06.319][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:02:06.320][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:02:06.321][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:06.323][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:06.324][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:02:06.325][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:02:06.326][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:06.327][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:06.328][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:02:06.329][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:02:06.330][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:06.331][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:06.333][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:02:06.334][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:02:06.335][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:06.335][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:06.337][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:02:06.338][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:02:06.339][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:06.339][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:06.341][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:02:06.342][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:06.343][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:06.343][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:06.345][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:02:06.346][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:06.347][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:06.347][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:06.355][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:06.357][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:06.358][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:06.359][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:06.360][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:06.361][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:06.362][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:06.363][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:06.364][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:02:06.365][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:02:06.366][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:06.367][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:06.368][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:02:06.369][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:02:06.370][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:06.371][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:06.372][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:02:06.373][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:02:06.374][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:06.375][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:06.376][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:02:06.377][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:02:06.378][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:06.379][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:06.380][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:02:06.381][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:02:06.382][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:06.383][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:06.384][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:06.385][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:06.386][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:06.387][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:06.388][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:06.389][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:06.390][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:06.390][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:06.391][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:06.392][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:06.393][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:06.394][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:06.395][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:06.396][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:06.397][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:06.398][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:06.399][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:06.400][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:06.401][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:06.402][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:06.403][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:06.404][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:06.405][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:06.406][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:06.407][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:06.408][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:06.409][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:06.409][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:06.411][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:06.412][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:06.413][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:06.413][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:06.414][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:06.415][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:06.416][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:06.417][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:06.418][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:06.419][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:06.420][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:06.421][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:06.422][self$createEntryFromContent] Accession numbers: 85086.
biodb.TRACE[2025-08-30 16:02:06.423][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:06.424][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:06.425][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:06.426][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:06.427][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:06.428][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:06.429][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:06.430][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:06.431][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:06.432][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:06.433][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:06.433][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:06.434][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:06.435][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:06.436][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:06.440][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:06.445][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:06.446][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:06.447][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:02:06.449][private$loadEntries] Creating entries from ids [1]: "88123".
biodb.DEBUG[2025-08-30 16:02:06.450][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-08-30 16:02:06.451][cch$loadFileContent] Trying to load 1 files from cache: [1]: "88123".
biodb.TRACE[2025-08-30 16:02:06.452][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-08-30 16:02:06.453][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-08-30 16:02:06.454][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-30 16:02:06.455][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-08-30 16:02:06.456][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-08-30 16:02:06.457][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-08-30 16:02:06.459][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:06.460][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:06.461][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:06.465][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:06.466][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:06.467][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:06.468][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:02:06.469][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=88123".
biodb.DEBUG[2025-08-30 16:02:06.472][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-08-30 16:02:06.473][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-08-30 16:02:06.474][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=88123".
biodb.TRACE[2025-08-30 16:02:06.820][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=88123).
biodb.DEBUG[2025-08-30 16:02:07.164][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-08-30 16:02:07.171][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/8e37f256f660b350650d4ca45d7cd291.content"
biodb.TRACE[2025-08-30 16:02:07.180][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/8e37f256f660b350650d4ca45d7cd291.request"
biodb.TRACE[2025-08-30 16:02:07.186][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/88123.xml"
biodb.DEBUG[2025-08-30 16:02:07.190][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-08-30 16:02:07.193][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-30 16:02:07.196][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-30 16:02:07.201][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:07.203][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:07.205][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:07.216][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:07.218][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:07.220][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:07.221][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:02:07.225][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:07.227][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:07.229][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:07.230][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:07.232][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:07.233][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:07.235][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:07.236][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:07.237][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:02:07.239][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:02:07.240][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:07.241][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:07.243][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:02:07.244][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:02:07.245][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:07.246][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:07.247][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:02:07.249][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:02:07.250][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:07.251][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:07.252][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:02:07.253][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:02:07.254][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:07.255][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:07.256][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:02:07.257][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:02:07.258][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:07.259][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:07.261][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:02:07.262][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:02:07.263][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:07.264][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:07.281][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:02:07.283][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:02:07.284][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:07.285][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:07.286][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:02:07.287][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:02:07.288][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:07.289][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:07.290][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:02:07.291][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:02:07.292][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:07.293][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:07.295][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:02:07.296][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:07.297][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:07.298][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:07.299][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:02:07.300][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:07.301][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:07.302][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:07.303][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:07.304][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:07.305][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:07.306][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:07.307][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:07.308][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:07.309][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:07.310][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:07.311][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:02:07.312][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:02:07.313][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:07.314][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:07.316][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:02:07.317][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:02:07.318][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:07.319][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:07.320][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:02:07.321][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:02:07.321][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:07.322][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:07.323][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:02:07.324][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:02:07.325][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:07.326][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:07.327][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:02:07.328][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:02:07.329][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:07.330][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:07.331][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:02:07.332][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:02:07.333][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:07.334][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:07.335][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:07.336][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:07.337][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:07.338][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:07.339][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:07.340][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:07.341][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:07.342][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:07.343][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:07.344][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:07.345][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:07.346][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:07.347][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:07.348][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:07.349][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:07.349][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:07.350][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:07.351][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:07.352][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:07.353][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:07.354][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:07.355][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:07.356][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:07.357][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:07.358][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:07.359][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:07.360][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:07.361][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:07.362][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:07.363][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:07.364][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:07.365][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:07.366][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:07.367][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:07.515][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:07.516][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:07.517][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:07.518][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:07.519][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:07.520][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:07.521][self$createEntryFromContent] Accession numbers: 88123.
biodb.TRACE[2025-08-30 16:02:07.522][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:07.523][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:07.523][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:07.524][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:07.525][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:07.526][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:07.527][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:07.528][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:07.529][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:07.530][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:07.531][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:07.532][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:07.533][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:07.533][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:07.534][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:07.538][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:07.539][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:07.540][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:07.541][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:02:07.542][private$loadEntries] Creating entries from ids [1]: "134117".
biodb.DEBUG[2025-08-30 16:02:07.543][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-08-30 16:02:07.544][cch$loadFileContent] Trying to load 1 files from cache: [1]: "134117".
biodb.TRACE[2025-08-30 16:02:07.545][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-08-30 16:02:07.546][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-08-30 16:02:07.547][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-30 16:02:07.548][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-08-30 16:02:07.549][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-08-30 16:02:07.550][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-08-30 16:02:07.553][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:07.553][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:07.554][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:07.558][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:07.559][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:07.560][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:07.561][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:02:07.562][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=134117".
biodb.DEBUG[2025-08-30 16:02:07.564][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-08-30 16:02:07.565][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-08-30 16:02:07.566][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=134117".
biodb.TRACE[2025-08-30 16:02:07.905][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=134117).
biodb.DEBUG[2025-08-30 16:02:08.244][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-08-30 16:02:08.248][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/8f998f0023bf19b8745b926f0b2992d7.content"
biodb.TRACE[2025-08-30 16:02:08.255][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/8f998f0023bf19b8745b926f0b2992d7.request"
biodb.TRACE[2025-08-30 16:02:08.261][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/134117.xml"
biodb.DEBUG[2025-08-30 16:02:08.264][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-08-30 16:02:08.267][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-30 16:02:08.269][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-30 16:02:08.273][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:08.275][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:08.277][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:08.286][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:08.288][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:08.290][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:08.292][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:02:08.296][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:08.297][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:08.299][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:08.301][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:08.302][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:08.304][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:08.305][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:08.307][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:08.308][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:02:08.310][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:02:08.311][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:08.312][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:08.314][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:02:08.315][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:02:08.316][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:08.318][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:08.319][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:02:08.320][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:02:08.321][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:08.322][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:08.324][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:02:08.325][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:02:08.326][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:08.327][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:08.329][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:02:08.330][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:02:08.331][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:08.332][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:08.333][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:02:08.334][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:02:08.335][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:08.336][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:08.338][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:02:08.339][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:02:08.340][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:08.341][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:08.342][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:02:08.343][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:02:08.344][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:08.345][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:08.346][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:02:08.347][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:02:08.348][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:08.349][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:08.351][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:02:08.352][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:08.353][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:08.354][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:08.355][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:02:08.357][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:08.358][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:08.359][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:08.360][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:08.361][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:08.362][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:08.363][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:08.364][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:08.366][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:08.367][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:08.368][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:08.369][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:02:08.370][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:02:08.371][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:08.372][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:08.374][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:02:08.375][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:02:08.376][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:08.377][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:08.378][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:02:08.379][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:02:08.380][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:08.381][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:08.383][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:02:08.384][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:02:08.385][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:08.386][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:08.387][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:02:08.388][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:02:08.389][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:08.390][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:08.391][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:02:08.393][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:02:08.394][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:08.395][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:08.396][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:08.397][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:08.398][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:08.399][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:08.400][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:08.401][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:08.402][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:08.403][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:08.405][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:08.406][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:08.407][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:08.408][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:08.409][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:08.410][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:08.411][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:08.412][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:08.413][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:08.414][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:08.415][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:08.417][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:08.418][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:08.419][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:08.420][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:08.421][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:08.422][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:08.423][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:08.424][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:08.425][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:08.426][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:08.428][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:08.429][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:08.430][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:08.431][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:08.432][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:08.433][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:08.434][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:08.435][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:08.436][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:08.437][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:08.438][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:08.440][self$createEntryFromContent] Accession numbers: 134117.
biodb.TRACE[2025-08-30 16:02:08.441][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:08.442][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:08.443][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:08.444][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:08.445][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:08.446][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:08.447][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:08.448][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:08.449][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:08.451][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:08.452][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:08.453][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:08.454][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:08.455][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:08.456][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:08.461][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:08.462][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:08.463][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:08.464][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:02:08.465][private$loadEntries] Creating entries from ids [1]: "138307".
biodb.DEBUG[2025-08-30 16:02:08.466][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-08-30 16:02:08.468][cch$loadFileContent] Trying to load 1 files from cache: [1]: "138307".
biodb.TRACE[2025-08-30 16:02:08.469][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-08-30 16:02:08.470][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-08-30 16:02:08.471][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-30 16:02:08.473][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-08-30 16:02:08.474][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-08-30 16:02:08.475][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-08-30 16:02:08.478][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:08.479][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:08.480][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:08.484][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:08.485][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:08.486][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:08.487][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:02:08.489][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=138307".
biodb.DEBUG[2025-08-30 16:02:08.492][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-08-30 16:02:08.493][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-08-30 16:02:08.494][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=138307".
biodb.TRACE[2025-08-30 16:02:08.834][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=138307).
biodb.DEBUG[2025-08-30 16:02:09.174][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-08-30 16:02:09.179][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/a2610bdf009c6327ccf7d519fff16ded.content"
biodb.TRACE[2025-08-30 16:02:09.188][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/a2610bdf009c6327ccf7d519fff16ded.request"
biodb.TRACE[2025-08-30 16:02:09.194][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/138307.xml"
biodb.DEBUG[2025-08-30 16:02:09.198][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-08-30 16:02:09.201][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-30 16:02:09.204][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-30 16:02:09.209][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:09.211][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:09.213][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:09.224][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:09.226][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:09.228][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:09.229][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:02:09.233][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:09.235][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:09.237][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:09.239][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:09.240][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:09.242][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:09.244][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:09.245][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:09.247][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:02:09.248][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:02:09.250][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:09.251][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:09.253][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:02:09.254][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:02:09.255][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:09.256][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:09.258][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:02:09.259][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:02:09.260][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:09.261][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:09.263][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:02:09.264][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:02:09.265][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:09.266][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:09.268][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:02:09.269][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:02:09.270][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:09.271][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:09.272][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:02:09.273][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:02:09.274][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:09.276][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:09.277][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:02:09.278][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:02:09.279][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:09.280][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:09.281][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:02:09.282][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:02:09.283][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:09.285][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:09.286][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:02:09.287][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:02:09.288][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:09.289][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:09.290][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:02:09.291][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:09.292][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:09.294][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:09.295][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:02:09.296][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:09.297][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:09.298][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:09.299][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:09.300][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:09.301][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:09.302][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:09.304][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:09.305][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:09.306][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:09.307][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:09.308][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:02:09.309][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:02:09.310][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:09.321][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:09.323][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:02:09.324][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:02:09.325][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:09.325][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:09.327][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:02:09.327][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:02:09.328][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:09.329][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:09.330][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:02:09.331][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:02:09.332][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:09.333][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:09.334][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:02:09.335][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:02:09.336][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:09.337][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:09.338][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:02:09.339][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:02:09.340][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:09.341][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:09.342][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:09.343][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:09.344][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:09.345][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:09.346][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:09.347][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:09.347][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:09.348][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:09.349][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:09.350][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:09.351][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:09.352][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:09.353][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:09.354][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:09.355][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:09.356][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:09.357][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:09.358][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:09.359][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:09.359][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:09.360][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:09.361][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:09.362][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:09.363][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:09.364][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:09.365][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:09.366][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:09.367][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:09.368][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:09.369][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:09.370][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:09.371][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:09.372][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:09.373][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:09.374][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:09.374][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:09.375][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:09.376][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:09.377][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:09.378][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:09.379][self$createEntryFromContent] Accession numbers: 138307.
biodb.TRACE[2025-08-30 16:02:09.380][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:09.381][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:09.382][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:09.383][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:09.384][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:09.385][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:09.386][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:09.387][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:09.387][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:09.388][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:09.389][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:09.390][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:09.391][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:09.392][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:09.393][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:09.397][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:09.398][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:09.399][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:09.400][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:02:09.401][private$loadEntries] Creating entries from ids [1]: "176803".
biodb.DEBUG[2025-08-30 16:02:09.402][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-08-30 16:02:09.403][cch$loadFileContent] Trying to load 1 files from cache: [1]: "176803".
biodb.TRACE[2025-08-30 16:02:09.404][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-08-30 16:02:09.405][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-08-30 16:02:09.406][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-30 16:02:09.407][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-08-30 16:02:09.408][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-08-30 16:02:09.409][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-08-30 16:02:09.412][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:09.413][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:09.413][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:09.418][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:09.419][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:09.420][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:09.420][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:02:09.422][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=176803".
biodb.DEBUG[2025-08-30 16:02:09.424][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-08-30 16:02:09.425][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-08-30 16:02:09.426][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=176803".
biodb.TRACE[2025-08-30 16:02:09.776][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=176803).
biodb.DEBUG[2025-08-30 16:02:10.124][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-08-30 16:02:10.129][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/648921bf283f148f1437569ccee0fc41.content"
biodb.TRACE[2025-08-30 16:02:10.136][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/648921bf283f148f1437569ccee0fc41.request"
biodb.TRACE[2025-08-30 16:02:10.142][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/176803.xml"
biodb.DEBUG[2025-08-30 16:02:10.145][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-08-30 16:02:10.148][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-30 16:02:10.150][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-30 16:02:10.154][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:10.156][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:10.158][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:10.167][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:10.169][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:10.171][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:10.173][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:02:10.176][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:10.178][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:10.180][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:10.181][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:10.183][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:10.185][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:10.186][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:10.188][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:10.189][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:02:10.190][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:02:10.192][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:10.193][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:10.195][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:02:10.196][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:02:10.197][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:10.198][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:10.200][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:02:10.201][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:02:10.202][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:10.203][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:10.204][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:02:10.206][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:02:10.207][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:10.208][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:10.209][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:02:10.210][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:02:10.211][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:10.212][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:10.213][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:02:10.214][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:02:10.215][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:10.216][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:10.217][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:02:10.218][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:02:10.219][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:10.220][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:10.221][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:02:10.222][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:02:10.223][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:10.224][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:10.225][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:02:10.226][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:02:10.227][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:10.228][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:10.229][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:02:10.230][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:10.231][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:10.232][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:10.233][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:02:10.234][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:10.235][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:10.236][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:10.237][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:10.238][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:10.238][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:10.239][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:10.240][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:10.241][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:10.242][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:10.243][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:10.244][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:02:10.245][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:02:10.246][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:10.247][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:10.248][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:02:10.249][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:02:10.250][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:10.251][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:10.252][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:02:10.253][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:02:10.254][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:10.255][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:10.256][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:02:10.257][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:02:10.258][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:10.259][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:10.260][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:02:10.261][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:02:10.262][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:10.263][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:10.264][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:02:10.265][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:02:10.266][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:10.267][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:10.268][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:10.269][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:10.270][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:10.271][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:10.272][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:10.273][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:10.273][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:10.274][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:10.275][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:10.276][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:10.277][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:10.278][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:10.279][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:10.280][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:10.281][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:10.282][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:10.283][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:10.284][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:10.285][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:10.286][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:10.287][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:10.288][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:10.289][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:10.289][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:10.290][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:10.291][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:10.292][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:10.293][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:10.294][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:10.295][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:10.296][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:10.297][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:10.298][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:10.299][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:10.300][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:10.301][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:10.302][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:10.303][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:10.304][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:10.305][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:10.306][self$createEntryFromContent] Accession numbers: 176803.
biodb.TRACE[2025-08-30 16:02:10.307][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:10.308][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:10.309][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:10.310][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:10.310][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:10.311][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:10.312][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:10.313][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:10.314][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:10.315][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:10.316][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:10.317][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:10.318][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:10.319][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:10.320][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:10.324][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:10.325][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:10.326][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:10.327][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:02:10.328][private$loadEntries] Creating entries from ids [1]: "176962".
biodb.DEBUG[2025-08-30 16:02:10.329][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-08-30 16:02:10.330][cch$loadFileContent] Trying to load 1 files from cache: [1]: "176962".
biodb.TRACE[2025-08-30 16:02:10.331][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-08-30 16:02:10.332][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-08-30 16:02:10.333][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-30 16:02:10.334][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-08-30 16:02:10.335][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-08-30 16:02:10.336][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-08-30 16:02:10.339][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:10.340][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:10.340][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:10.345][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:10.346][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:10.346][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:10.347][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:02:10.348][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=176962".
biodb.DEBUG[2025-08-30 16:02:10.351][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-08-30 16:02:10.352][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-08-30 16:02:10.353][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=176962".
biodb.TRACE[2025-08-30 16:02:10.732][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=176962).
biodb.DEBUG[2025-08-30 16:02:11.071][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-08-30 16:02:11.075][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/881a0b9df4a64ff0258c2dc68959eb26.content"
biodb.TRACE[2025-08-30 16:02:11.083][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/881a0b9df4a64ff0258c2dc68959eb26.request"
biodb.TRACE[2025-08-30 16:02:11.088][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/176962.xml"
biodb.DEBUG[2025-08-30 16:02:11.091][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-08-30 16:02:11.094][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-30 16:02:11.096][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-30 16:02:11.100][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:11.102][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:11.104][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:11.113][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:11.115][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:11.117][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:11.119][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:02:11.122][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:11.124][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:11.126][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:11.127][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:11.129][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:11.131][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:11.132][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:11.134][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:11.135][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:02:11.149][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:02:11.150][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:11.151][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:11.152][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:02:11.153][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:02:11.154][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:11.155][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:11.157][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:02:11.158][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:02:11.159][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:11.160][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:11.161][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:02:11.162][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:02:11.163][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:11.164][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:11.165][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:02:11.166][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:02:11.166][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:11.167][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:11.168][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:02:11.169][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:02:11.170][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:11.171][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:11.172][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:02:11.173][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:02:11.174][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:11.175][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:11.176][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:02:11.177][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:02:11.178][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:11.179][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:11.180][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:02:11.181][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:02:11.182][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:11.182][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:11.184][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:02:11.185][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:11.186][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:11.186][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:11.187][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:02:11.188][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:11.189][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:11.190][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:11.191][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:11.192][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:11.193][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:11.194][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:11.195][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:11.196][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:11.197][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:11.198][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:11.199][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:02:11.200][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:02:11.201][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:11.202][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:11.203][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:02:11.204][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:02:11.205][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:11.206][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:11.207][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:02:11.208][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:02:11.209][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:11.209][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:11.211][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:02:11.212][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:02:11.212][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:11.213][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:11.214][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:02:11.215][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:02:11.216][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:11.217][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:11.218][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:02:11.219][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:02:11.220][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:11.221][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:11.222][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:11.223][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:11.224][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:11.225][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:11.226][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:11.227][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:11.228][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:11.228][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:11.229][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:11.230][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:11.231][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:11.232][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:11.233][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:11.234][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:11.235][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:11.236][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:11.237][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:11.238][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:11.239][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:11.240][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:11.241][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:11.242][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:11.243][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:11.243][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:11.244][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:11.245][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:11.246][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:11.247][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:11.248][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:11.249][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:11.250][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:11.251][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:11.252][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:11.253][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:11.254][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:11.255][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:11.256][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:11.257][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:11.258][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:11.259][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:11.260][self$createEntryFromContent] Accession numbers: 176962.
biodb.TRACE[2025-08-30 16:02:11.261][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:11.262][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:11.263][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:11.263][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:11.264][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:11.265][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:11.266][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:11.267][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:11.268][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:11.269][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:11.270][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:11.271][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:11.272][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:11.273][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:11.274][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:11.278][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:11.279][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:11.279][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:11.280][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:02:11.281][private$loadEntries] Creating entries from ids [1]: "198655".
biodb.DEBUG[2025-08-30 16:02:11.282][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-08-30 16:02:11.284][cch$loadFileContent] Trying to load 1 files from cache: [1]: "198655".
biodb.TRACE[2025-08-30 16:02:11.285][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-08-30 16:02:11.286][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-08-30 16:02:11.287][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-30 16:02:11.288][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-08-30 16:02:11.289][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-08-30 16:02:11.290][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-08-30 16:02:11.292][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:11.293][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:11.294][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:11.298][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:11.299][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:11.300][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:11.301][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:02:11.302][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=198655".
biodb.DEBUG[2025-08-30 16:02:11.304][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-08-30 16:02:11.305][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-08-30 16:02:11.307][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=198655".
biodb.TRACE[2025-08-30 16:02:11.669][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=198655).
biodb.DEBUG[2025-08-30 16:02:12.003][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-08-30 16:02:12.005][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/f2e175d021d3c86c1362fa584a90fbad.content"
biodb.TRACE[2025-08-30 16:02:12.008][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/f2e175d021d3c86c1362fa584a90fbad.request"
biodb.TRACE[2025-08-30 16:02:12.010][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/198655.xml"
biodb.DEBUG[2025-08-30 16:02:12.012][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-08-30 16:02:12.013][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-30 16:02:12.014][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-30 16:02:12.016][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:12.016][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:12.017][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:12.022][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:12.023][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:12.023][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:12.024][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:02:12.026][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:12.027][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:12.028][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:12.029][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:12.030][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:12.031][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:12.032][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:12.033][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:12.034][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:02:12.035][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:02:12.036][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:12.037][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:12.038][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:02:12.039][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:02:12.040][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:12.041][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:12.042][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:02:12.043][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:02:12.044][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:12.045][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:12.046][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:02:12.047][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:02:12.048][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:12.049][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:12.050][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:02:12.051][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:02:12.052][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:12.053][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:12.054][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:02:12.055][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:02:12.056][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:12.057][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:12.058][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:02:12.059][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:02:12.060][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:12.061][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:12.062][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:02:12.063][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:02:12.064][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:12.065][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:12.066][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:02:12.067][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:02:12.068][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:12.069][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:12.070][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:02:12.071][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:12.072][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:12.072][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:12.074][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:02:12.075][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:12.076][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:12.076][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:12.077][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:12.078][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:12.079][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:12.080][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:12.081][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:12.082][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:12.083][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:12.084][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:12.085][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:02:12.086][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:02:12.087][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:12.088][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:12.089][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:02:12.090][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:02:12.091][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:12.092][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:12.093][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:02:12.094][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:02:12.095][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:12.096][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:12.097][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:02:12.098][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:02:12.099][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:12.100][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:12.101][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:02:12.102][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:02:12.103][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:12.104][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:12.105][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:02:12.106][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:02:12.107][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:12.108][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:12.109][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:12.110][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:12.111][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:12.112][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:12.113][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:12.114][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:12.114][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:12.115][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:12.116][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:12.117][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:12.118][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:12.119][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:12.120][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:12.121][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:12.122][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:12.123][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:12.124][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:12.125][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:12.126][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:12.127][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:12.128][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:12.129][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:12.130][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:12.130][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:12.131][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:12.132][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:12.133][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:12.134][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:12.135][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:12.136][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:12.137][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:12.138][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:12.139][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:12.140][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:12.141][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:12.142][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:12.143][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:12.144][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:12.145][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:12.146][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:12.147][self$createEntryFromContent] Accession numbers: 198655.
biodb.TRACE[2025-08-30 16:02:12.148][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:12.149][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:12.150][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:12.150][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:12.151][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:12.152][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:12.153][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:12.154][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:12.155][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:12.156][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:12.157][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:12.158][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:12.159][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:12.160][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:12.161][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:12.165][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:12.166][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:12.167][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:12.167][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:02:12.168][private$loadEntries] Creating entries from ids [1]: "215045".
biodb.DEBUG[2025-08-30 16:02:12.169][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-08-30 16:02:12.171][cch$loadFileContent] Trying to load 1 files from cache: [1]: "215045".
biodb.TRACE[2025-08-30 16:02:12.172][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-08-30 16:02:12.174][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/215045.xml".
biodb.DEBUG[2025-08-30 16:02:12.182][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-30 16:02:12.183][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-30 16:02:12.184][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-30 16:02:12.186][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:12.186][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:12.187][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:12.191][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:12.192][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:12.193][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:12.194][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:02:12.196][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:12.197][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:12.198][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:12.199][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:12.200][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:12.201][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:12.202][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:12.203][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:12.204][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:02:12.205][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:02:12.206][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:12.206][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:12.208][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:02:12.209][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:02:12.209][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:12.210][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:12.211][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:02:12.212][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:02:12.213][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:12.214][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:12.215][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:02:12.216][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:02:12.217][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:12.218][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:12.219][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:02:12.220][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:02:12.221][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:12.222][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:12.223][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:02:12.224][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:02:12.225][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:12.226][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:12.227][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:02:12.228][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:02:12.229][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:12.230][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:12.231][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:02:12.232][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:02:12.233][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:12.233][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:12.234][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:02:12.235][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:02:12.236][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:12.237][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:12.238][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:02:12.239][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:12.240][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:12.241][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:12.242][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:02:12.243][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:12.244][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:12.245][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:12.246][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:12.247][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:12.248][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:12.249][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:12.250][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:12.251][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:12.252][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:12.253][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:12.254][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:02:12.255][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:02:12.256][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:12.256][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:12.258][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:02:12.259][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:02:12.260][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:12.261][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:12.262][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:02:12.263][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:02:12.263][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:12.264][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:12.265][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:02:12.266][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:02:12.267][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:12.268][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:12.269][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:02:12.270][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:02:12.271][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:12.272][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:12.273][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:02:12.274][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:02:12.275][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:12.276][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:12.277][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:12.278][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:12.279][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:12.280][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:12.281][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:12.282][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:12.283][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:12.284][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:12.285][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:12.286][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:12.287][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:12.288][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:12.289][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:12.290][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:12.291][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:12.292][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:12.293][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:12.294][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:12.295][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:12.296][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:12.296][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:12.297][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:12.298][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:12.299][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:12.300][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:12.301][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:12.302][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:12.303][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:12.304][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:12.305][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:12.306][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:12.307][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:12.308][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:12.309][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:12.310][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:12.311][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:12.312][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:12.313][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:12.314][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:12.315][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:12.316][self$createEntryFromContent] Accession numbers: 215045.
biodb.TRACE[2025-08-30 16:02:12.317][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:12.318][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:12.319][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:12.319][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:12.320][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:12.321][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:12.322][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:12.323][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:12.324][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:12.325][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:12.326][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:12.327][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:12.343][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-08-30 16:02:12.346][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-08-30 16:02:12.347][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2025-08-30 16:02:12.348][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-08-30 16:02:12.349][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.DEBUG[2025-08-30 16:02:12.352][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:12.353][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:12.354][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:12.358][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:12.358][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:12.359][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:12.360][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:02:12.361][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:12.362][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:12.363][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:12.364][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:12.365][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:12.366][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:12.367][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:12.368][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:12.369][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:12.370][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:12.371][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:12.372][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:12.373][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:12.373][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:12.374][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:12.378][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:12.379][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:12.380][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:12.381][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:02:12.382][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:12.383][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:12.384][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:12.385][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:12.386][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:12.387][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:12.388][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:12.388][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:12.390][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:12.391][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:12.391][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:12.392][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:12.393][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:12.394][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:12.395][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:12.396][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:12.397][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:12.398][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:12.399][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:12.400][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:12.401][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:12.402][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:12.403][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:12.407][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:12.408][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:12.408][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:12.409][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:02:12.410][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:12.411][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:12.412][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:12.413][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:12.414][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:12.415][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:12.416][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:12.417][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:12.418][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:12.419][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:12.420][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:12.421][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:12.422][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:12.423][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:12.424][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:12.425][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:12.426][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:12.427][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:12.428][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:12.429][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:12.430][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:12.430][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:12.431][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:12.435][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:12.436][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:12.437][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:12.438][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:02:12.439][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:12.440][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:12.441][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:12.442][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:12.443][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:12.444][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:12.445][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:12.446][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:12.447][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:12.448][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:12.449][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:12.449][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:12.450][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:12.451][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:12.452][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:12.453][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:12.454][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:12.455][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:12.456][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:12.457][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:12.458][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:12.459][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:12.460][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:12.464][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:12.465][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:12.465][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:12.466][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:02:12.467][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:12.468][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:12.469][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:12.470][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:12.471][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:12.472][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:12.473][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:12.474][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:12.475][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:12.476][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:12.477][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:12.478][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:12.479][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:12.480][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:12.480][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:12.484][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:12.485][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:12.486][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:12.487][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:02:12.488][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:12.489][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:12.490][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:12.491][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:12.492][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:12.493][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:12.494][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:12.495][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:12.496][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:12.497][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:12.498][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:12.499][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:12.500][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:12.500][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:12.501][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:12.505][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:12.506][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:12.507][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:12.508][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:02:12.509][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:12.510][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:12.515][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:12.516][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:12.517][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:12.518][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:12.519][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:12.520][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:12.521][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:12.522][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:12.523][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:12.524][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:12.525][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:12.526][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:12.527][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:12.531][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:12.532][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:12.532][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:12.533][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:02:12.534][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:12.536][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:12.536][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:12.537][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:12.538][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:12.539][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:12.540][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:12.541][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:12.542][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:12.543][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:12.544][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:12.545][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:12.546][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:12.547][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:12.548][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:12.552][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:12.553][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:12.553][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:12.554][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:02:12.555][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:12.556][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:12.557][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:12.558][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:12.559][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:12.560][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:12.561][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:12.562][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:12.563][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:12.564][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:12.565][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:12.565][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:12.566][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:12.567][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:12.568][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:12.572][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:12.573][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:12.574][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:12.574][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:02:12.576][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:12.577][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:12.577][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:12.578][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:12.579][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:12.580][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:12.581][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:12.582][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:12.583][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:12.584][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:12.585][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:12.586][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:12.587][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:12.588][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:12.588][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:12.592][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:12.593][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:12.594][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:12.595][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:02:12.596][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:12.597][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:12.598][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:12.599][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:12.600][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:12.601][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:12.602][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:12.603][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:12.603][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:12.604][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:12.605][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:12.606][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:12.607][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:12.608][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:12.609][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:12.613][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:12.614][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:12.615][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:12.615][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:02:12.617][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:12.618][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:12.618][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:12.619][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:12.620][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:12.621][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:12.622][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:12.623][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:12.624][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:12.625][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:12.626][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:12.627][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:12.628][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:12.629][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:12.630][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:12.633][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:12.634][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:12.635][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:12.636][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:02:12.637][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:12.638][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:12.639][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:12.640][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:12.641][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:12.642][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:12.643][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:12.644][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:12.645][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:12.646][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:12.647][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:12.648][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:12.649][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:12.649][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:12.650][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:12.654][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:12.655][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:12.656][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:12.657][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:02:12.658][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:12.659][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:12.660][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:12.661][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:12.662][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:12.663][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:12.664][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:12.664][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:12.665][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:12.666][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:12.667][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:12.668][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:12.669][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:12.670][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:12.671][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:12.675][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:12.676][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:12.677][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:12.677][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:02:12.679][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:12.680][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:12.681][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:12.681][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:12.682][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:12.683][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:12.684][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:12.685][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:12.686][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:12.687][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:12.688][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:12.689][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:12.690][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:12.691][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:12.692][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:12.696][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:12.697][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:12.698][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:12.698][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:02:12.699][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:12.700][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:12.701][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:12.702][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:12.703][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:12.704][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:12.705][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:12.706][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:12.707][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:12.708][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:12.709][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:12.710][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:12.711][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:12.712][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:12.713][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:12.717][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:12.718][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:12.718][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:12.719][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:02:12.720][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:12.721][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:12.722][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:12.723][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:12.724][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:12.725][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:12.726][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:12.727][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:12.728][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:12.729][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:12.730][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:12.731][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:12.732][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:12.733][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:12.733][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:12.737][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:12.738][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:12.739][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:12.740][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:02:12.741][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:12.742][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:12.743][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:12.744][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:12.745][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:12.746][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:12.747][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:12.747][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:12.748][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:12.749][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:12.750][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:12.751][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:12.752][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:12.753][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:12.754][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:12.758][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:12.759][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:12.759][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:12.760][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:02:12.761][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:12.762][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:12.763][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:12.764][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:12.765][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:12.766][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:12.767][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:12.768][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:12.769][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:12.770][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:12.771][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:12.772][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:12.773][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:12.773][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:12.774][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:12.778][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:12.779][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:12.780][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:12.781][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:02:12.782][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:12.783][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:12.784][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:12.785][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:12.786][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:12.787][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:12.788][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:12.788][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:12.789][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:12.790][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:12.791][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:12.792][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:12.804][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:12.805][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:12.806][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:12.807][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:12.808][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:12.809][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:12.810][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:12.811][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:12.812][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:12.813][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:12.814][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:12.815][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:12.816][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:12.817][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:12.818][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:12.819][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:12.820][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:12.821][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:12.822][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:12.823][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:12.850][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39124*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-08-30 16:02:12.853][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-08-30 16:02:12.854][cch$loadFileContent] Trying to load 1 files from cache: [1]: "c5171beada848a87ef2ffa10427d9be3".
biodb.TRACE[2025-08-30 16:02:12.855][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-08-30 16:02:12.857][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/c5171beada848a87ef2ffa10427d9be3.content".
biodb.DEBUG[2025-08-30 16:02:12.859][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39125*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-08-30 16:02:12.862][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-08-30 16:02:12.863][cch$loadFileContent] Trying to load 1 files from cache: [1]: "750e63ff76a843f016511fa71c89113e".
biodb.TRACE[2025-08-30 16:02:12.864][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-08-30 16:02:12.866][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/750e63ff76a843f016511fa71c89113e.content".
biodb.DEBUG[2025-08-30 16:02:12.868][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:12.869][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:12.869][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:12.873][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:12.874][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:12.875][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:12.876][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:02:12.877][private$loadEntries] Creating entries from ids [1]: "4648".
biodb.DEBUG[2025-08-30 16:02:12.878][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-08-30 16:02:12.879][cch$loadFileContent] Trying to load 1 files from cache: [1]: "4648".
biodb.TRACE[2025-08-30 16:02:12.880][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-08-30 16:02:12.882][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/4648.xml".
biodb.DEBUG[2025-08-30 16:02:12.883][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-30 16:02:12.884][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-30 16:02:12.885][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-30 16:02:12.887][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:12.887][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:12.888][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:12.892][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:12.893][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:12.894][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:12.895][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:02:12.897][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:12.898][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:12.899][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:12.900][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:12.901][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:12.902][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:12.903][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:12.903][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:12.905][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:02:12.905][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:02:12.906][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:12.907][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:12.908][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:02:12.909][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:02:12.910][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:12.911][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:12.912][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:02:12.913][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:02:12.914][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:12.915][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:12.916][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:02:12.917][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:02:12.918][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:12.919][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:12.920][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:02:12.921][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:02:12.922][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:12.923][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:12.924][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:02:12.925][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:02:12.926][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:12.927][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:12.928][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:02:12.929][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:02:12.930][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:12.931][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:12.932][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:02:12.933][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:02:12.934][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:12.935][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:12.936][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:02:12.937][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:02:12.938][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:12.939][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:12.940][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:02:12.941][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:02:12.942][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:12.942][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:12.943][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:02:12.945][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:12.945][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:12.946][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:12.947][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:02:12.948][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:12.949][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:12.950][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:12.951][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:12.952][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:12.953][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:12.954][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:12.955][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:12.956][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:12.957][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:12.958][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:12.959][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:02:12.960][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:02:12.961][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:12.962][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:12.963][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:02:12.964][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:02:12.965][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:12.966][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:12.967][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:02:12.968][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:02:12.969][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:12.970][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:12.971][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:02:12.972][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:02:12.973][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:12.974][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:12.975][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:02:12.976][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:02:12.977][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:12.978][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:12.979][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:02:12.980][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:02:12.981][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:12.982][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:12.983][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:12.984][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:12.985][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:12.985][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:12.986][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:12.987][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:12.988][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:12.989][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:12.990][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:12.991][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:12.992][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:12.993][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:12.994][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:12.995][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:12.996][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:12.997][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:12.998][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:12.999][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:13.000][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:13.001][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:13.002][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:13.003][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:13.003][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:13.004][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:13.005][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:13.006][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:13.007][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:13.008][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:13.009][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:13.010][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:13.011][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:13.012][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:13.013][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:13.014][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:13.015][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:13.016][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:13.017][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:13.018][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:13.019][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:13.020][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:13.021][self$createEntryFromContent] Accession numbers: 4648.
biodb.TRACE[2025-08-30 16:02:13.022][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:13.023][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:13.024][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:13.025][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:13.025][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:13.026][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:13.027][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:13.028][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:13.029][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:13.030][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:13.031][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:13.032][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:13.033][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:13.034][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:13.035][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:13.039][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:13.040][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:13.041][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:13.042][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:02:13.043][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:13.044][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:13.045][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:13.046][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:13.047][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:13.048][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:13.048][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:13.049][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:13.050][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:13.051][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:13.052][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:13.053][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:13.054][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:13.055][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:13.056][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:13.060][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:13.061][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:13.062][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:13.063][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:02:13.064][private$loadEntries] Creating entries from ids [1]: "62447".
biodb.DEBUG[2025-08-30 16:02:13.065][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-08-30 16:02:13.066][cch$loadFileContent] Trying to load 1 files from cache: [1]: "62447".
biodb.TRACE[2025-08-30 16:02:13.067][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-08-30 16:02:13.069][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/62447.xml".
biodb.DEBUG[2025-08-30 16:02:13.070][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-30 16:02:13.071][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-30 16:02:13.072][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-30 16:02:13.074][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:13.075][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:13.075][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:13.080][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:13.080][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:13.081][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:13.082][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:02:13.085][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:13.086][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:13.086][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:13.087][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:13.088][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:13.090][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:13.090][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:13.091][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:13.092][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:02:13.093][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:02:13.094][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:13.095][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:13.096][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:02:13.097][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:02:13.098][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:13.099][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:13.100][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:02:13.101][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:02:13.102][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:13.103][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:13.104][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:02:13.105][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:02:13.106][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:13.107][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:13.108][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:02:13.109][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:02:13.110][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:13.111][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:13.112][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:02:13.113][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:02:13.114][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:13.115][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:13.116][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:02:13.117][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:02:13.118][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:13.119][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:13.120][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:02:13.121][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:02:13.122][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:13.123][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:13.124][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:02:13.125][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:02:13.126][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:13.126][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:13.128][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:02:13.129][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:13.130][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:13.130][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:13.132][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:02:13.133][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:13.134][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:13.134][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:13.135][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:13.137][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:13.137][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:13.138][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:13.139][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:13.140][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:13.141][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:13.142][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:13.143][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:02:13.144][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:02:13.145][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:13.146][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:13.147][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:02:13.148][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:02:13.149][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:13.150][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:13.151][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:02:13.152][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:02:13.153][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:13.154][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:13.155][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:02:13.156][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:02:13.157][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:13.158][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:13.159][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:02:13.160][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:02:13.161][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:13.162][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:13.163][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:02:13.164][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:02:13.165][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:13.166][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:13.167][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:13.168][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:13.169][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:13.170][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:13.175][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:13.176][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:13.177][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:13.178][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:13.179][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:13.180][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:13.181][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:13.182][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:13.182][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:13.183][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:13.184][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:13.185][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:13.186][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:13.187][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:13.188][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:13.189][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:13.190][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:13.191][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:13.192][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:13.193][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:13.194][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:13.195][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:13.196][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:13.196][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:13.198][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:13.199][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:13.199][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:13.200][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:13.201][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:13.202][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:13.203][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:13.204][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:13.205][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:13.206][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:13.207][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:13.208][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:13.209][self$createEntryFromContent] Accession numbers: 62447.
biodb.TRACE[2025-08-30 16:02:13.210][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:13.211][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:13.212][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:13.212][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:13.213][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:13.214][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:13.215][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:13.216][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:13.217][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:13.218][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:13.219][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:13.220][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:13.235][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-08-30 16:02:13.238][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-08-30 16:02:13.240][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2025-08-30 16:02:13.241][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-08-30 16:02:13.242][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.DEBUG[2025-08-30 16:02:13.245][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:13.245][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:13.246][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:13.250][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:13.251][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:13.252][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:13.253][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:02:13.254][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:13.255][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:13.256][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:13.256][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:13.257][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:13.258][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:13.259][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:13.260][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:13.261][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:13.262][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:13.263][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:13.264][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:13.265][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:13.266][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:13.267][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:13.271][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:13.271][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:13.272][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:13.273][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:02:13.274][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:13.275][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:13.276][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:13.277][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:13.278][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:13.279][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:13.280][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:13.281][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:13.282][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:13.283][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:13.284][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:13.285][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:13.286][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:13.287][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:13.287][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:13.288][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:13.289][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:13.290][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:13.291][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:13.292][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:13.293][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:13.294][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:13.295][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:13.299][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:13.300][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:13.300][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:13.301][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:02:13.302][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:13.303][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:13.304][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:13.305][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:13.306][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:13.307][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:13.308][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:13.309][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:13.310][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:13.311][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:13.312][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:13.313][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:13.314][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:13.315][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:13.316][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:13.317][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:13.318][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:13.319][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:13.319][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:13.320][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:13.321][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:13.322][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:13.323][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:13.327][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:13.328][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:13.329][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:13.330][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:02:13.331][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:13.332][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:13.333][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:13.333][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:13.334][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:13.335][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:13.336][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:13.337][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:13.338][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:13.339][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:13.340][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:13.341][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:13.342][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:13.343][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:13.344][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:13.345][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:13.346][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:13.347][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:13.348][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:13.349][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:13.350][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:13.350][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:13.351][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:13.355][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:13.356][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:13.357][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:13.358][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:02:13.359][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:13.360][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:13.361][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:13.362][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:13.363][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:13.364][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:13.365][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:13.365][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:13.366][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:13.367][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:13.368][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:13.369][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:13.370][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:13.371][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:13.372][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:13.376][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:13.377][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:13.377][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:13.378][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:02:13.379][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:13.380][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:13.381][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:13.382][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:13.383][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:13.384][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:13.385][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:13.386][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:13.387][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:13.388][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:13.389][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:13.390][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:13.391][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:13.392][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:13.392][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:13.396][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:13.397][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:13.398][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:13.399][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:02:13.400][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:13.401][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:13.402][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:13.403][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:13.404][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:13.405][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:13.406][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:13.406][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:13.407][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:13.408][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:13.409][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:13.410][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:13.411][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:13.412][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:13.413][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:13.417][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:13.418][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:13.418][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:13.419][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:02:13.420][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:13.421][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:13.422][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:13.423][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:13.424][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:13.425][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:13.426][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:13.427][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:13.428][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:13.429][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:13.430][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:13.431][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:13.432][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:13.433][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:13.433][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:13.437][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:13.438][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:13.439][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:13.440][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:02:13.441][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:13.442][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:13.443][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:13.444][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:13.445][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:13.446][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:13.447][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:13.448][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:13.449][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:13.450][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:13.451][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:13.451][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:13.452][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:13.453][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:13.454][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:13.458][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:13.459][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:13.460][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:13.461][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:02:13.462][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:13.463][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:13.464][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:13.464][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:13.465][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:13.466][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:13.467][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:13.468][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:13.469][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:13.470][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:13.471][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:13.472][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:13.473][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:13.474][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:13.475][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:13.478][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:13.479][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:13.480][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:13.481][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:02:13.482][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:13.483][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:13.484][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:13.485][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:13.486][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:13.487][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:13.488][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:13.489][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:13.490][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:13.491][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:13.491][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:13.492][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:13.493][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:13.494][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:13.495][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:13.499][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:13.504][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:13.505][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:13.505][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:02:13.506][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:13.507][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:13.508][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:13.509][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:13.510][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:13.511][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:13.512][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:13.513][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:13.514][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:13.515][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:13.516][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:13.517][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:13.518][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:13.518][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:13.519][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:13.523][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:13.524][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:13.525][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:13.525][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:02:13.526][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:13.527][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:13.528][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:13.529][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:13.530][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:13.531][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:13.532][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:13.533][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:13.534][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:13.535][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:13.536][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:13.537][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:13.537][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:13.538][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:13.539][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:13.543][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:13.544][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:13.545][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:13.545][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:02:13.546][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:13.547][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:13.548][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:13.549][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:13.550][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:13.551][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:13.552][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:13.553][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:13.554][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:13.555][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:13.556][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:13.557][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:13.558][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:13.558][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:13.559][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:13.563][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:13.564][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:13.565][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:13.565][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:02:13.566][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:13.567][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:13.568][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:13.569][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:13.570][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:13.571][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:13.572][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:13.573][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:13.574][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:13.575][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:13.576][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:13.577][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:13.578][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:13.578][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:13.579][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:13.583][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:13.584][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:13.585][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:13.585][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:02:13.586][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:13.587][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:13.588][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:13.589][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:13.590][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:13.591][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:13.592][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:13.593][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:13.594][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:13.595][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:13.596][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:13.597][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:13.598][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:13.599][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:13.599][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:13.603][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:13.604][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:13.605][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:13.606][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:02:13.607][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:13.608][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:13.609][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:13.610][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:13.611][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:13.612][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:13.612][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:13.613][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:13.614][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:13.615][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:13.616][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:13.617][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:13.618][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:13.619][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:13.620][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:13.623][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:13.624][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:13.625][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:13.626][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:02:13.627][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:13.628][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:13.629][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:13.630][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:13.631][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:13.632][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:13.633][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:13.634][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:13.635][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:13.636][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:13.637][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:13.637][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:13.638][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:13.639][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:13.640][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:13.644][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:13.645][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:13.646][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:13.646][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:02:13.647][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:13.648][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:13.649][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:13.650][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:13.651][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:13.652][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:13.653][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:13.654][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:13.655][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:13.656][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:13.657][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:13.658][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:13.659][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:13.660][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:13.660][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:13.664][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:13.665][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:13.666][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:13.667][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:02:13.668][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:13.669][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:13.670][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:13.671][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:13.672][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:13.673][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:13.674][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:13.675][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:13.676][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:13.677][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:13.677][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:13.678][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:13.694][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-08-30 16:02:13.696][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-08-30 16:02:13.698][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2025-08-30 16:02:13.699][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-08-30 16:02:13.700][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.DEBUG[2025-08-30 16:02:13.703][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:13.704][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:13.704][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:13.708][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:13.709][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:13.710][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:13.711][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:02:13.712][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:13.713][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:13.714][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:13.715][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:13.716][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:13.717][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:13.718][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:13.719][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:13.720][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:13.721][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:13.721][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:13.722][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:13.723][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:13.724][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:13.725][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:13.729][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:13.730][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:13.731][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:13.732][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:02:13.733][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:13.734][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:13.735][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:13.735][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:13.736][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:13.737][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:13.738][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:13.739][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:13.740][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:13.741][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:13.742][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:13.743][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:13.744][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:13.745][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:13.746][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:13.747][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:13.748][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:13.749][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:13.750][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:13.751][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:13.752][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:13.752][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:13.753][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:13.757][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:13.758][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:13.759][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:13.760][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:02:13.761][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:13.762][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:13.763][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:13.764][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:13.765][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:13.766][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:13.767][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:13.767][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:13.768][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:13.770][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:13.770][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:13.771][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:13.772][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:13.773][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:13.774][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:13.775][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:13.776][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:13.777][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:13.778][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:13.779][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:13.780][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:13.781][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:13.782][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:13.785][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:13.786][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:13.787][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:13.788][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:02:13.789][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:13.790][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:13.791][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:13.792][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:13.793][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:13.794][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:13.795][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:13.796][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:13.797][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:13.798][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:13.799][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:13.799][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:13.800][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:13.801][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:13.802][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:13.803][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:13.804][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:13.805][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:13.806][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:13.807][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:13.808][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:13.809][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:13.810][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:13.814][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:13.814][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:13.815][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:13.816][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:02:13.817][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:13.818][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:13.819][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:13.820][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:13.821][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:13.822][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:13.823][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:13.824][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:13.825][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:13.830][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:13.831][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:13.832][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:13.833][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:13.834][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:13.834][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:13.838][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:13.839][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:13.840][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:13.841][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:02:13.842][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:13.843][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:13.843][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:13.844][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:13.845][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:13.846][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:13.847][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:13.848][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:13.849][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:13.850][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:13.851][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:13.852][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:13.853][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:13.854][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:13.854][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:13.858][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:13.859][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:13.860][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:13.861][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:02:13.862][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:13.863][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:13.864][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:13.864][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:13.865][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:13.866][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:13.867][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:13.868][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:13.869][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:13.870][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:13.871][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:13.872][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:13.873][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:13.874][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:13.874][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:13.878][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:13.879][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:13.880][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:13.881][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:02:13.882][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:13.883][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:13.884][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:13.885][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:13.885][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:13.886][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:13.887][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:13.888][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:13.889][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:13.890][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:13.891][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:13.892][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:13.893][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:13.894][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:13.895][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:13.898][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:13.899][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:13.900][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:13.901][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:02:13.902][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:13.903][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:13.904][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:13.905][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:13.906][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:13.907][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:13.907][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:13.908][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:13.909][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:13.910][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:13.911][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:13.912][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:13.913][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:13.914][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:13.915][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:13.918][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:13.919][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:13.920][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:13.921][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:02:13.922][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:13.923][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:13.924][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:13.925][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:13.926][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:13.927][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:13.928][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:13.929][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:13.930][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:13.931][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:13.932][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:13.932][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:13.933][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:13.934][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:13.935][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:13.939][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:13.940][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:13.941][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:13.941][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:02:13.942][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:13.943][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:13.944][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:13.945][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:13.946][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:13.947][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:13.948][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:13.949][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:13.950][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:13.951][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:13.952][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:13.953][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:13.954][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:13.955][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:13.955][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:13.959][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:13.960][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:13.961][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:13.962][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:02:13.963][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:13.964][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:13.965][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:13.966][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:13.967][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:13.968][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:13.969][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:13.969][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:13.970][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:13.971][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:13.972][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:13.973][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:13.974][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:13.975][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:13.976][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:13.980][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:13.980][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:13.981][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:13.982][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:02:13.983][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:13.984][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:13.985][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:13.986][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:13.987][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:13.988][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:13.989][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:13.990][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:13.991][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:13.992][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:13.993][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:13.993][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:13.994][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:13.995][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:13.996][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:14.000][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:14.001][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:14.002][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:14.002][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:02:14.003][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:14.004][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:14.005][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:14.006][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:14.007][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:14.008][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:14.009][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:14.010][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:14.011][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:14.012][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:14.013][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:14.014][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:14.015][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:14.016][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:14.016][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:14.020][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:14.021][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:14.022][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:14.023][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:02:14.024][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:14.025][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:14.026][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:14.027][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:14.028][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:14.029][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:14.030][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:14.030][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:14.031][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:14.032][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:14.033][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:14.034][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:14.035][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:14.036][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:14.037][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:14.041][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:14.041][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:14.042][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:14.043][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:02:14.044][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:14.045][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:14.046][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:14.047][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:14.048][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:14.049][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:14.050][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:14.051][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:14.052][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:14.053][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:14.054][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:14.055][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:14.055][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:14.056][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:14.057][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:14.061][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:14.062][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:14.063][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:14.063][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:02:14.064][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:14.065][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:14.066][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:14.067][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:14.068][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:14.069][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:14.070][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:14.071][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:14.072][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:14.073][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:14.074][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:14.075][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:14.076][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:14.077][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:14.077][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:14.081][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:14.082][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:14.083][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:14.084][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:02:14.085][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:14.086][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:14.087][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:14.088][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:14.089][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:14.090][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:14.091][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:14.091][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:14.092][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:14.093][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:14.094][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:14.095][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:14.096][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:14.097][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:14.098][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:14.102][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:14.103][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:14.103][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:14.104][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:02:14.105][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:14.106][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:14.107][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:14.108][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:14.109][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:14.110][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:14.111][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:14.112][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:14.113][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:14.114][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:14.115][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:14.116][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:14.117][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:14.117][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:14.118][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:14.122][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:14.123][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:14.124][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:14.125][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:02:14.126][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:14.127][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:14.128][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:14.128][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:14.129][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:14.130][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:14.131][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:14.132][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:14.133][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:14.134][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:14.135][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:14.136][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:14.153][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2025-08-30 16:02:14.154][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2025-08-30 16:02:14.155][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:14.156][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-08-30 16:02:14.162][biodb::testThat]
biodb.INFO [2025-08-30 16:02:14.163][biodb::testThat] Running test function  test_annotateMzValues_input_vector  (" annotateMzValues() accepts a single vector. ").
biodb.INFO [2025-08-30 16:02:14.164][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-08-30 16:02:14.165][biodb::testThat]
biodb.TRACE[2025-08-30 16:02:14.168][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-08-30 16:02:14.169][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-08-30 16:02:14.169][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:14.170][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:14.171][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-08-30 16:02:14.172][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-08-30 16:02:14.173][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:14.174][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:14.175][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-08-30 16:02:14.176][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-08-30 16:02:14.177][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:14.178][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:14.179][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:14.180][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:14.181][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:14.181][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:14.182][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:14.183][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:14.184][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:14.185][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:14.186][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:14.187][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:14.188][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:14.189][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:14.190][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:14.191][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:14.192][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:14.193][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:14.193][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:14.194][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:14.195][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:14.196][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:14.197][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:14.198][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:14.199][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:14.200][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:14.201][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:14.202][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:14.203][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:14.204][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:14.205][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:14.206][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:14.207][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:14.208][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:14.209][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:14.210][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:14.210][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:14.211][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:14.212][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:14.213][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:14.214][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:14.215][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:14.216][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:14.217][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:14.218][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:14.219][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:14.220][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:14.221][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:14.222][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:14.223][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:14.226][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:14.227][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:14.228][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:14.232][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:14.233][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:14.234][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:14.235][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:02:14.237][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.72*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-08-30 16:02:14.240][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-08-30 16:02:14.241][cch$loadFileContent] Trying to load 1 files from cache: [1]: "dabc9e8530050c4ceebbaec76743bcf1".
biodb.TRACE[2025-08-30 16:02:14.242][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-08-30 16:02:14.244][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/dabc9e8530050c4ceebbaec76743bcf1.content".
biodb.DEBUG[2025-08-30 16:02:14.246][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:14.247][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:14.248][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:14.252][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:14.253][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:14.253][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:14.254][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:02:14.255][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:14.256][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:14.257][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:14.258][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:14.259][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:14.260][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:14.261][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:14.262][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:14.263][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:14.264][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:14.265][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:14.266][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:14.267][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.73*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-08-30 16:02:14.270][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-08-30 16:02:14.272][cch$loadFileContent] Trying to load 1 files from cache: [1]: "41b7f9723242a79cfe14bebd91dbb5b6".
biodb.TRACE[2025-08-30 16:02:14.273][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-08-30 16:02:14.274][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/41b7f9723242a79cfe14bebd91dbb5b6.content".
biodb.DEBUG[2025-08-30 16:02:14.276][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:14.277][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:14.278][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:14.282][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:14.283][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:14.284][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:14.284][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:02:14.286][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:14.287][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:14.288][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:14.288][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:14.289][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:14.290][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:14.291][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:14.292][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:14.293][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:14.294][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:14.295][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:14.296][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:14.297][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:14.298][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:14.299][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:14.303][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:14.304][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:14.304][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:14.305][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:02:14.306][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:14.307][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:14.308][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:14.309][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:14.310][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:14.311][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:14.312][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:14.313][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:14.314][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:14.315][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:14.316][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:14.317][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:14.318][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-08-30 16:02:14.319][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:14.320][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:14.321][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:14.325][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:14.326][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:14.327][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:14.328][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:02:14.329][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:14.330][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:14.331][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:14.332][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:14.333][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:14.334][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:14.334][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:14.335][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:14.336][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:02:14.337][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:02:14.338][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:02:14.339][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:02:14.340][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:02:14.341][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:14.342][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:14.343][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:14.344][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:14.345][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:14.346][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:14.347][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:14.348][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:14.348][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:02:14.349][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:02:14.350][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:14.351][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:14.352][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:14.353][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:14.354][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-30 16:02:14.355][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:14.356][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:14.357][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:14.358][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:14.359][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:14.360][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:14.361][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:14.362][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:14.363][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:14.364][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:14.365][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:14.365][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:14.375][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [192288].
biodb.DEBUG[2025-08-30 16:02:14.376][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:14.377][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:14.378][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:14.382][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:14.383][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:14.383][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:14.384][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:02:14.385][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:14.386][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:14.387][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:14.388][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:14.389][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:14.390][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:14.391][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:14.392][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:14.393][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:02:14.394][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:02:14.395][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:02:14.396][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:02:14.397][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:02:14.398][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:14.399][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:14.399][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:14.400][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:14.401][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:14.402][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:14.403][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:14.404][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:14.405][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:02:14.406][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:02:14.407][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:14.408][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:14.409][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:14.410][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:14.411][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-30 16:02:14.412][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:14.413][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:14.414][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:14.414][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:14.415][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:14.416][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:14.417][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:14.418][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:14.419][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:14.420][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:14.421][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:14.422][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:14.423][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-08-30 16:02:14.424][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:14.425][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:14.426][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:14.430][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:14.431][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:14.432][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:14.433][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:02:14.434][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:14.435][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:14.436][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:14.437][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:14.438][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:14.439][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:14.440][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:14.440][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:14.441][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:02:14.442][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:02:14.443][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:02:14.444][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:02:14.445][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:02:14.446][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:14.447][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:14.448][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:14.449][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:14.450][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:14.451][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:14.452][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:14.452][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:14.453][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:02:14.454][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:02:14.455][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:14.456][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:14.457][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:14.458][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:14.459][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-30 16:02:14.460][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:14.461][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:14.462][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:14.463][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:14.464][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:14.465][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:14.466][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:14.467][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:14.468][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:14.469][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:14.469][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:14.470][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:14.472][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [209892].
biodb.DEBUG[2025-08-30 16:02:14.473][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-08-30 16:02:14.473][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2025-08-30 16:02:14.476][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:14.477][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:14.478][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:14.486][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:14.487][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:14.488][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:14.489][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:02:14.491][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=480.62*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-08-30 16:02:14.494][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-08-30 16:02:14.495][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-08-30 16:02:14.497][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=480.62%2A&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.TRACE[2025-08-30 16:02:14.834][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=480.62%2A&searchCategory=MASS&maximumResults=0&starsCategory=ALL).
biodb.DEBUG[2025-08-30 16:02:15.170][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2025-08-30 16:02:15.175][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b3cd8ddf08f509014f10dc9bf7c1649d.content"
biodb.TRACE[2025-08-30 16:02:15.183][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b3cd8ddf08f509014f10dc9bf7c1649d.request"
biodb.DEBUG[2025-08-30 16:02:15.189][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:15.191][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:15.193][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:15.202][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:15.204][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:15.207][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:15.209][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:02:15.211][private$loadEntries] Creating entries from ids [1]: "113227".
biodb.DEBUG[2025-08-30 16:02:15.213][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-08-30 16:02:15.216][cch$loadFileContent] Trying to load 1 files from cache: [1]: "113227".
biodb.TRACE[2025-08-30 16:02:15.218][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-08-30 16:02:15.220][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-08-30 16:02:15.222][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-30 16:02:15.224][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-08-30 16:02:15.226][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-08-30 16:02:15.227][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-08-30 16:02:15.231][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:15.232][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:15.233][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:15.239][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:15.240][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:15.241][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:15.242][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:02:15.244][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=113227".
biodb.DEBUG[2025-08-30 16:02:15.247][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-08-30 16:02:15.248][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-08-30 16:02:15.250][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=113227".
biodb.TRACE[2025-08-30 16:02:15.594][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=113227).
biodb.DEBUG[2025-08-30 16:02:15.933][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-08-30 16:02:15.938][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/ed496dac459a2ba62e671edbcae22326.content"
biodb.TRACE[2025-08-30 16:02:15.945][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/ed496dac459a2ba62e671edbcae22326.request"
biodb.TRACE[2025-08-30 16:02:15.951][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/113227.xml"
biodb.DEBUG[2025-08-30 16:02:15.954][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-08-30 16:02:15.957][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-30 16:02:15.959][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-30 16:02:15.963][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:15.965][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:15.967][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:15.976][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:15.978][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:15.980][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:15.981][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:02:15.985][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:15.987][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:15.988][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:15.990][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:15.992][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:15.993][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:15.995][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:15.996][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:15.998][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:02:15.999][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:02:16.001][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:16.002][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:16.003][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:02:16.005][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:02:16.006][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:16.007][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:16.008][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:02:16.010][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:02:16.011][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:16.012][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:16.014][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:02:16.015][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:02:16.016][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:16.017][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:16.018][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:02:16.019][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:02:16.020][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:16.021][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:16.022][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:02:16.023][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:02:16.024][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:16.025][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:16.026][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:02:16.027][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:02:16.028][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:16.029][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:16.030][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:02:16.031][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:02:16.032][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:16.033][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:16.034][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:02:16.035][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:02:16.036][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:16.037][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:16.038][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:02:16.039][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:16.040][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:16.041][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:16.042][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:02:16.043][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:16.044][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:16.045][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:16.046][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:16.047][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:16.048][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:16.049][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:16.050][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:16.051][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:16.052][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:16.052][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:16.053][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:02:16.054][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:02:16.055][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:16.056][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:16.058][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:02:16.059][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:02:16.060][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:16.060][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:16.061][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:02:16.062][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:02:16.063][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:16.064][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:16.065][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:02:16.066][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:02:16.067][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:16.068][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:16.069][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:02:16.070][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:02:16.071][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:16.072][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:16.073][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:02:16.074][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:02:16.075][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:16.076][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:16.077][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:16.078][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:16.079][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:16.080][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:16.081][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:16.082][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:16.083][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:16.084][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:16.085][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:16.086][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:16.087][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:16.087][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:16.088][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:16.089][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:16.090][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:16.091][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:16.092][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:16.093][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:16.094][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:16.095][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:16.096][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:16.097][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:16.098][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:16.099][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:16.100][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:16.101][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:16.102][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:16.103][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:16.104][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:16.105][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:16.106][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:16.106][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:16.107][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:16.108][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:16.109][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:16.110][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:16.111][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:16.112][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:16.113][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:16.114][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:16.115][self$createEntryFromContent] Accession numbers: 113227.
biodb.TRACE[2025-08-30 16:02:16.116][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:16.117][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:16.118][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:16.119][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:16.120][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:16.121][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:16.122][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:16.122][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:16.123][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:16.124][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:16.125][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:16.126][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:16.127][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:16.128][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:16.129][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:16.133][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:16.134][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:16.135][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:16.136][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:02:16.137][private$loadEntries] Creating entries from ids [1]: "169712".
biodb.DEBUG[2025-08-30 16:02:16.138][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-08-30 16:02:16.139][cch$loadFileContent] Trying to load 1 files from cache: [1]: "169712".
biodb.TRACE[2025-08-30 16:02:16.140][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-08-30 16:02:16.141][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-08-30 16:02:16.143][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-30 16:02:16.143][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-08-30 16:02:16.144][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-08-30 16:02:16.145][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-08-30 16:02:16.148][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:16.149][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:16.150][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:16.154][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:16.155][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:16.155][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:16.156][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:02:16.157][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=169712".
biodb.DEBUG[2025-08-30 16:02:16.160][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-08-30 16:02:16.161][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-08-30 16:02:16.162][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=169712".
biodb.TRACE[2025-08-30 16:02:16.502][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=169712).
biodb.DEBUG[2025-08-30 16:02:16.843][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-08-30 16:02:16.847][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/6e52d7b9d801aec68d97cc03bd4acc90.content"
biodb.TRACE[2025-08-30 16:02:16.854][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/6e52d7b9d801aec68d97cc03bd4acc90.request"
biodb.TRACE[2025-08-30 16:02:16.860][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/169712.xml"
biodb.DEBUG[2025-08-30 16:02:16.863][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-08-30 16:02:16.866][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-30 16:02:16.868][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-30 16:02:16.872][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:16.874][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:16.876][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:16.885][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:16.887][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:16.889][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:16.890][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:02:16.894][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:16.896][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:16.898][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:16.899][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:16.901][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:16.903][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:16.904][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:16.906][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:16.907][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:02:16.909][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:02:16.910][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:16.911][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:16.913][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:02:16.914][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:02:16.915][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:16.917][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:16.918][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:02:16.919][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:02:16.920][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:16.921][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:16.923][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:02:16.924][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:02:16.925][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:16.926][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:16.927][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:02:16.928][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:02:16.929][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:16.930][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:16.932][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:02:16.933][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:02:16.934][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:16.934][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:16.935][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:02:16.936][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:02:16.937][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:16.938][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:16.939][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:02:16.940][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:02:16.941][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:16.942][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:16.943][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:02:16.944][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:02:16.945][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:16.946][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:16.947][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:02:16.948][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:16.949][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:16.950][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:16.951][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:02:16.952][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:16.953][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:16.954][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:16.955][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:16.968][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:16.969][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:16.970][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:16.971][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:16.972][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:16.973][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:16.974][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:16.975][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:02:16.976][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:02:16.977][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:16.978][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:16.979][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:02:16.980][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:02:16.981][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:16.982][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:16.983][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:02:16.984][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:02:16.985][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:16.985][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:16.987][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:02:16.988][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:02:16.988][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:16.989][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:16.990][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:02:16.991][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:02:16.992][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:16.993][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:16.994][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:02:16.995][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:02:16.996][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:16.997][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:16.998][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:16.999][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:17.000][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:17.001][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:17.002][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:17.003][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:17.004][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:17.004][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:17.005][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:17.006][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:17.007][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:17.008][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:17.009][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:17.010][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:17.011][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:17.012][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:17.013][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:17.014][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:17.015][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:17.016][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:17.017][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:17.018][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:17.018][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:17.019][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:17.020][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:17.021][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:17.022][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:17.023][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:17.024][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:17.025][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:17.026][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:17.027][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:17.028][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:17.029][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:17.030][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:17.031][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:17.032][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:17.033][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:17.033][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:17.034][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:17.035][self$createEntryFromContent] Accession numbers: 169712.
biodb.TRACE[2025-08-30 16:02:17.036][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:17.037][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:17.038][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:17.039][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:17.040][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:17.041][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:17.042][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:17.043][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:17.044][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:17.045][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:17.046][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:17.047][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:17.048][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=480.63*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-08-30 16:02:17.051][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-08-30 16:02:17.052][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-08-30 16:02:17.054][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=480.63%2A&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.TRACE[2025-08-30 16:02:17.399][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=480.63%2A&searchCategory=MASS&maximumResults=0&starsCategory=ALL).
biodb.DEBUG[2025-08-30 16:02:17.746][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2025-08-30 16:02:17.748][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/831507e33c6cf42061851262412f5feb.content"
biodb.TRACE[2025-08-30 16:02:17.752][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/831507e33c6cf42061851262412f5feb.request"
biodb.DEBUG[2025-08-30 16:02:17.755][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:17.756][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:17.757][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:17.761][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:17.762][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:17.763][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:17.764][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:02:17.765][private$loadEntries] Creating entries from ids [1]: "4781".
biodb.DEBUG[2025-08-30 16:02:17.766][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-08-30 16:02:17.768][cch$loadFileContent] Trying to load 1 files from cache: [1]: "4781".
biodb.TRACE[2025-08-30 16:02:17.769][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-08-30 16:02:17.770][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-08-30 16:02:17.771][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-30 16:02:17.772][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-08-30 16:02:17.773][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-08-30 16:02:17.774][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-08-30 16:02:17.777][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:17.777][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:17.778][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:17.783][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:17.784][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:17.785][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:17.785][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:02:17.787][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=4781".
biodb.DEBUG[2025-08-30 16:02:17.789][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-08-30 16:02:17.790][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-08-30 16:02:17.792][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=4781".
biodb.TRACE[2025-08-30 16:02:18.140][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=4781).
biodb.DEBUG[2025-08-30 16:02:18.556][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-08-30 16:02:18.559][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/e4869054c906476bc1e4ece10c7e53cc.content"
biodb.TRACE[2025-08-30 16:02:18.562][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/e4869054c906476bc1e4ece10c7e53cc.request"
biodb.TRACE[2025-08-30 16:02:18.564][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/4781.xml"
biodb.DEBUG[2025-08-30 16:02:18.566][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-08-30 16:02:18.567][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-30 16:02:18.568][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-30 16:02:18.570][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:18.571][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:18.572][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:18.576][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:18.577][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:18.578][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:18.579][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:02:18.581][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:18.582][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:18.583][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:18.584][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:18.586][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:18.587][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:18.588][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:18.589][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:18.590][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:02:18.591][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:02:18.592][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:18.593][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:18.594][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:02:18.595][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:02:18.596][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:18.597][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:18.598][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:02:18.599][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:02:18.600][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:18.601][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:18.603][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:02:18.604][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:02:18.605][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:18.606][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:18.607][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:02:18.608][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:02:18.609][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:18.610][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:18.611][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:02:18.612][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:02:18.613][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:18.614][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:18.615][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:02:18.616][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:02:18.617][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:18.618][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:18.619][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:02:18.620][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:02:18.621][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:18.622][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:18.623][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:02:18.624][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:02:18.625][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:18.625][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:18.627][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:02:18.628][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:02:18.629][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:18.630][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:18.631][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:02:18.632][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:18.633][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:18.633][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:18.635][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:02:18.636][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:18.637][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:18.637][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:18.639][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:18.640][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:18.640][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:18.641][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:18.643][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:18.644][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:18.644][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:18.645][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:18.646][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:02:18.647][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:02:18.648][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:18.649][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:18.651][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:02:18.652][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:02:18.653][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:18.653][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:18.654][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:02:18.655][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:02:18.656][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:18.657][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:18.658][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:02:18.659][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:02:18.660][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:18.661][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:18.662][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:02:18.663][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:02:18.664][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:18.665][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:18.666][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:02:18.667][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:02:18.668][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:18.669][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:18.670][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:18.671][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:18.672][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:18.673][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:18.674][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:18.675][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:18.676][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:18.677][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:18.678][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:18.679][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:18.679][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:18.680][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:18.681][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:18.682][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:18.683][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:18.684][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:18.685][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:18.686][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:18.687][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:18.688][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:18.689][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:18.690][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:18.691][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:18.692][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:18.693][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:18.694][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:18.695][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:18.695][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:18.697][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:18.698][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:18.698][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:18.699][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:18.700][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:18.701][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:18.702][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:18.703][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:18.704][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:18.705][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:18.706][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:18.707][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:18.708][self$createEntryFromContent] Accession numbers: 4781.
biodb.TRACE[2025-08-30 16:02:18.709][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:18.710][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:18.711][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:18.712][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:18.713][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:18.714][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:18.714][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:18.715][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:18.716][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:18.717][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:18.718][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:18.719][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:18.720][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:18.721][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:18.722][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:18.726][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:18.727][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:18.728][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:18.729][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:02:18.730][private$loadEntries] Creating entries from ids [1]: "16587".
biodb.DEBUG[2025-08-30 16:02:18.731][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-08-30 16:02:18.732][cch$loadFileContent] Trying to load 1 files from cache: [1]: "16587".
biodb.TRACE[2025-08-30 16:02:18.733][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-08-30 16:02:18.734][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-08-30 16:02:18.735][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-30 16:02:18.736][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-08-30 16:02:18.737][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-08-30 16:02:18.738][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-08-30 16:02:18.741][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:18.741][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:18.742][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:18.746][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:18.747][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:18.748][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:18.749][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:02:18.750][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=16587".
biodb.DEBUG[2025-08-30 16:02:18.753][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-08-30 16:02:18.763][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-08-30 16:02:18.765][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=16587".
biodb.TRACE[2025-08-30 16:02:19.131][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=16587).
biodb.DEBUG[2025-08-30 16:02:19.478][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-08-30 16:02:19.482][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/6012905c0932919c069ecb5afc0b487b.content"
biodb.TRACE[2025-08-30 16:02:19.489][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/6012905c0932919c069ecb5afc0b487b.request"
biodb.TRACE[2025-08-30 16:02:19.495][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/16587.xml"
biodb.DEBUG[2025-08-30 16:02:19.498][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-08-30 16:02:19.500][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-30 16:02:19.503][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-30 16:02:19.507][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:19.509][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:19.511][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:19.520][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:19.522][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:19.523][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:19.525][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:02:19.529][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:19.531][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:19.533][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:19.534][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:19.536][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:19.538][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:19.539][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:19.540][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:19.542][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:02:19.543][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:02:19.545][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:19.546][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:19.547][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:02:19.549][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:02:19.550][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:19.551][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:19.552][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:02:19.554][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:02:19.555][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:19.556][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:19.557][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:02:19.558][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:02:19.559][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:19.560][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:19.562][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:02:19.563][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:02:19.564][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:19.565][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:19.566][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:02:19.567][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:02:19.568][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:19.569][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:19.570][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:02:19.571][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:02:19.572][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:19.573][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:19.574][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:02:19.575][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:02:19.576][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:19.576][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:19.578][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:02:19.578][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:02:19.579][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:19.580][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:19.581][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:02:19.582][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:02:19.583][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:19.584][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:19.585][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:02:19.586][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:19.587][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:19.588][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:19.589][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:02:19.590][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:19.591][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:19.592][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:19.593][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:19.594][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:19.595][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:19.596][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:19.597][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:19.598][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:19.599][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:19.600][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:19.601][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:02:19.602][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:02:19.602][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:19.603][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:19.605][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:02:19.606][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:02:19.607][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:19.608][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:19.609][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:02:19.610][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:02:19.611][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:19.611][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:19.613][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:02:19.614][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:02:19.614][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:19.615][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:19.616][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:02:19.617][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:02:19.618][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:19.619][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:19.620][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:02:19.621][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:02:19.622][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:19.623][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:19.624][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:19.625][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:19.626][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:19.627][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:19.628][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:19.629][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:19.630][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:19.631][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:19.632][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:19.633][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:19.634][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:19.634][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:19.635][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:19.636][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:19.637][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:19.638][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:19.639][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:19.640][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:19.641][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:19.642][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:19.643][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:19.644][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:19.645][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:19.646][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:19.647][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:19.648][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:19.649][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:19.650][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:19.651][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:19.652][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:19.653][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:19.653][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:19.654][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:19.655][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:19.656][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:19.657][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:19.658][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:19.659][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:19.660][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:19.661][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:19.662][self$createEntryFromContent] Accession numbers: 16587.
biodb.TRACE[2025-08-30 16:02:19.663][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:19.664][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:19.665][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:19.666][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:19.667][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:19.668][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:19.669][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:19.670][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:19.670][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:19.671][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:19.672][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:19.673][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:19.674][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:19.675][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:19.676][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:19.680][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:19.681][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:19.682][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:19.683][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:02:19.684][private$loadEntries] Creating entries from ids [1]: "19804".
biodb.DEBUG[2025-08-30 16:02:19.685][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-08-30 16:02:19.686][cch$loadFileContent] Trying to load 1 files from cache: [1]: "19804".
biodb.TRACE[2025-08-30 16:02:19.688][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-08-30 16:02:19.689][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-08-30 16:02:19.690][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-30 16:02:19.691][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-08-30 16:02:19.692][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-08-30 16:02:19.693][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-08-30 16:02:19.695][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:19.696][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:19.697][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:19.701][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:19.702][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:19.703][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:19.703][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:02:19.705][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=19804".
biodb.DEBUG[2025-08-30 16:02:19.707][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-08-30 16:02:19.708][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-08-30 16:02:19.709][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=19804".
biodb.TRACE[2025-08-30 16:02:20.052][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=19804).
biodb.DEBUG[2025-08-30 16:02:20.397][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-08-30 16:02:20.401][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/ef7e014212775cbaa9299e60f32b2bcd.content"
biodb.TRACE[2025-08-30 16:02:20.408][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/ef7e014212775cbaa9299e60f32b2bcd.request"
biodb.TRACE[2025-08-30 16:02:20.414][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/19804.xml"
biodb.DEBUG[2025-08-30 16:02:20.417][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-08-30 16:02:20.420][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-30 16:02:20.422][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-30 16:02:20.426][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:20.428][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:20.430][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:20.439][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:20.441][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:20.443][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:20.444][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:02:20.448][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:20.450][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:20.452][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:20.453][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:20.455][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:20.456][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:20.458][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:20.459][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:20.461][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:02:20.462][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:02:20.464][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:20.465][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:20.466][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:02:20.468][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:02:20.469][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:20.470][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:20.471][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:02:20.473][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:02:20.474][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:20.475][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:20.476][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:02:20.477][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:02:20.478][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:20.479][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:20.481][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:02:20.482][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:02:20.483][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:20.484][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:20.485][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:02:20.486][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:02:20.487][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:20.488][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:20.489][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:02:20.490][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:02:20.491][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:20.492][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:20.493][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:02:20.494][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:02:20.495][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:20.496][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:20.497][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:02:20.498][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:02:20.498][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:20.499][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:20.500][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:02:20.501][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:20.502][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:20.503][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:20.504][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:02:20.505][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:20.506][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:20.507][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:20.508][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:20.509][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:20.510][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:20.511][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:20.512][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:20.513][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:20.514][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:20.515][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:20.516][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:02:20.517][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:02:20.518][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:20.519][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:20.520][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:02:20.521][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:02:20.522][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:20.523][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:20.524][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:02:20.525][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:02:20.526][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:20.527][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:20.528][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:02:20.529][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:02:20.530][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:20.531][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:20.532][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:02:20.533][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:02:20.533][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:20.534][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:20.536][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:02:20.537][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:02:20.537][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:20.538][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:20.539][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:20.540][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:20.541][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:20.542][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:20.543][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:20.544][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:20.545][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:20.546][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:20.547][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:20.548][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:20.549][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:20.550][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:20.551][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:20.552][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:20.553][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:20.553][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:20.554][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:20.555][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:20.556][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:20.557][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:20.558][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:20.559][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:20.560][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:20.571][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:20.572][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:20.573][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:20.574][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:20.575][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:20.576][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:20.577][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:20.578][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:20.579][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:20.579][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:20.580][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:20.581][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:20.582][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:20.583][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:20.584][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:20.585][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:20.586][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:20.587][self$createEntryFromContent] Accession numbers: 19804.
biodb.TRACE[2025-08-30 16:02:20.588][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:20.589][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:20.590][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:20.591][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:20.592][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:20.593][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:20.593][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:20.594][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:20.595][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:20.596][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:20.597][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:20.598][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:20.620][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-08-30 16:02:20.642][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:20.643][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:20.644][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:20.648][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:20.649][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:20.650][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:20.650][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:02:20.652][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:20.653][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:20.654][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:20.655][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:20.655][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:20.656][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:20.657][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:20.658][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:20.659][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:02:20.660][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:02:20.661][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:02:20.662][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:02:20.663][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:02:20.664][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:20.665][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:20.666][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:20.667][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:20.668][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:20.669][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:20.669][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:20.670][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:20.671][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:02:20.672][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:02:20.673][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:20.674][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:20.675][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:20.676][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:20.677][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-30 16:02:20.678][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:20.679][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:20.680][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:20.681][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:20.682][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:20.683][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:20.684][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:20.684][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:20.685][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:20.686][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:20.687][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:20.688][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:20.689][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4781].
biodb.DEBUG[2025-08-30 16:02:20.691][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:20.691][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:20.692][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:20.696][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:20.697][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:20.698][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:20.699][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:02:20.700][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:20.701][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:20.702][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:20.703][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:20.704][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:20.705][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:20.706][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:20.707][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:20.708][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:02:20.708][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:02:20.709][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:02:20.710][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:02:20.711][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:02:20.712][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:20.713][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:20.714][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:20.715][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:20.716][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:20.717][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:20.718][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:20.719][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:20.720][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:02:20.720][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:02:20.721][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:20.722][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:20.723][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:20.724][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:20.725][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-30 16:02:20.726][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:20.727][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:20.728][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:20.729][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:20.730][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:20.731][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:20.732][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:20.733][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:20.734][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:20.735][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:20.736][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:20.736][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:20.738][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [16587].
biodb.DEBUG[2025-08-30 16:02:20.739][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:20.740][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:20.740][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:20.745][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:20.745][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:20.746][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:20.747][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:02:20.748][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:20.749][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:20.750][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:20.751][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:20.752][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:20.753][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:20.754][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:20.755][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:20.756][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:02:20.757][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:02:20.758][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:02:20.759][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:02:20.759][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:02:20.760][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:20.761][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:20.762][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:20.763][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:20.764][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:20.765][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:20.766][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:20.767][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:20.768][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:02:20.769][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:02:20.770][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:20.771][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:20.772][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:20.773][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:20.773][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-30 16:02:20.774][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:20.775][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:20.776][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:20.777][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:20.778][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:20.779][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:20.780][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:20.781][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:20.782][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:20.783][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:20.784][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:20.785][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:20.786][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [19804].
biodb.DEBUG[2025-08-30 16:02:20.787][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-08-30 16:02:20.788][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2025-08-30 16:02:20.790][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:20.791][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:20.792][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:20.796][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:20.796][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:20.797][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:20.798][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:02:20.801][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.38*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-08-30 16:02:20.804][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-08-30 16:02:20.805][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-08-30 16:02:20.806][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.38%2A&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.TRACE[2025-08-30 16:02:21.156][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.38%2A&searchCategory=MASS&maximumResults=0&starsCategory=ALL).
biodb.DEBUG[2025-08-30 16:02:21.492][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2025-08-30 16:02:21.497][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/26d0872875c47c33e8205aa7124e0486.content"
biodb.TRACE[2025-08-30 16:02:21.505][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/26d0872875c47c33e8205aa7124e0486.request"
biodb.DEBUG[2025-08-30 16:02:21.511][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:21.513][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:21.515][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:21.524][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:21.527][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:21.529][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:21.531][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:02:21.533][private$loadEntries] Creating entries from ids [1]: "159630".
biodb.DEBUG[2025-08-30 16:02:21.535][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-08-30 16:02:21.538][cch$loadFileContent] Trying to load 1 files from cache: [1]: "159630".
biodb.TRACE[2025-08-30 16:02:21.541][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-08-30 16:02:21.543][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-08-30 16:02:21.544][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-30 16:02:21.546][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-08-30 16:02:21.548][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-08-30 16:02:21.549][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-08-30 16:02:21.553][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:21.554][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:21.556][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:21.561][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:21.563][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:21.564][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:21.565][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:02:21.566][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=159630".
biodb.DEBUG[2025-08-30 16:02:21.569][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-08-30 16:02:21.570][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-08-30 16:02:21.572][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=159630".
biodb.TRACE[2025-08-30 16:02:21.922][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=159630).
biodb.DEBUG[2025-08-30 16:02:22.262][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-08-30 16:02:22.267][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/f9497c6792bdb2528746e6a81b02589e.content"
biodb.TRACE[2025-08-30 16:02:22.274][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/f9497c6792bdb2528746e6a81b02589e.request"
biodb.TRACE[2025-08-30 16:02:22.279][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/159630.xml"
biodb.DEBUG[2025-08-30 16:02:22.282][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-08-30 16:02:22.285][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-30 16:02:22.288][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-30 16:02:22.291][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:22.293][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:22.295][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:22.305][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:22.307][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:22.308][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:22.310][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:02:22.314][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:22.316][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:22.317][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:22.319][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:22.333][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:22.335][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:22.336][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:22.337][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:22.338][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:02:22.340][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:02:22.341][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:22.342][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:22.343][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:02:22.344][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:02:22.345][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:22.346][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:22.347][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:02:22.349][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:02:22.350][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:22.350][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:22.352][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:02:22.353][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:02:22.354][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:22.355][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:22.356][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:02:22.357][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:02:22.358][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:22.358][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:22.360][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:02:22.361][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:02:22.361][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:22.362][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:22.363][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:02:22.364][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:02:22.365][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:22.366][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:22.367][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:02:22.368][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:02:22.369][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:22.370][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:22.371][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:02:22.372][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:02:22.373][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:22.374][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:22.375][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:02:22.376][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:22.377][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:22.378][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:22.379][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:02:22.380][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:22.381][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:22.382][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:22.383][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:22.384][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:22.385][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:22.385][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:22.386][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:22.387][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:22.388][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:22.389][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:22.390][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:02:22.391][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:02:22.392][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:22.393][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:22.394][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:02:22.395][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:02:22.396][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:22.397][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:22.398][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:02:22.399][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:02:22.400][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:22.401][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:22.402][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:02:22.403][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:02:22.404][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:22.405][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:22.406][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:02:22.407][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:02:22.408][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:22.409][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:22.410][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:02:22.411][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:02:22.411][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:22.412][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:22.413][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:22.414][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:22.415][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:22.416][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:22.417][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:22.418][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:22.419][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:22.420][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:22.421][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:22.422][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:22.423][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:22.424][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:22.425][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:22.426][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:22.427][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:22.427][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:22.428][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:22.429][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:22.430][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:22.431][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:22.432][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:22.433][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:22.434][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:22.435][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:22.436][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:22.437][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:22.438][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:22.439][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:22.440][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:22.441][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:22.442][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:22.443][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:22.444][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:22.445][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:22.446][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:22.446][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:22.447][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:22.448][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:22.449][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:22.450][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:22.451][self$createEntryFromContent] Accession numbers: 159630.
biodb.TRACE[2025-08-30 16:02:22.452][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:22.453][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:22.454][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:22.455][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:22.456][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:22.457][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:22.458][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:22.459][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:22.460][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:22.461][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:22.462][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:22.463][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:22.464][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:22.464][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:22.465][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:22.470][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:22.470][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:22.471][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:22.472][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:02:22.473][private$loadEntries] Creating entries from ids [1]: "160202".
biodb.DEBUG[2025-08-30 16:02:22.474][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-08-30 16:02:22.476][cch$loadFileContent] Trying to load 1 files from cache: [1]: "160202".
biodb.TRACE[2025-08-30 16:02:22.477][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-08-30 16:02:22.478][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-08-30 16:02:22.479][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-30 16:02:22.480][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-08-30 16:02:22.481][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-08-30 16:02:22.482][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-08-30 16:02:22.484][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:22.485][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:22.486][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:22.490][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:22.491][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:22.492][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:22.493][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:02:22.494][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=160202".
biodb.DEBUG[2025-08-30 16:02:22.496][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-08-30 16:02:22.497][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-08-30 16:02:22.498][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=160202".
biodb.TRACE[2025-08-30 16:02:22.841][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=160202).
biodb.DEBUG[2025-08-30 16:02:23.175][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-08-30 16:02:23.179][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/1de9586ccaafdf8e637928dc3e313d63.content"
biodb.TRACE[2025-08-30 16:02:23.186][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/1de9586ccaafdf8e637928dc3e313d63.request"
biodb.TRACE[2025-08-30 16:02:23.191][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/160202.xml"
biodb.DEBUG[2025-08-30 16:02:23.194][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-08-30 16:02:23.196][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-30 16:02:23.199][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-30 16:02:23.202][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:23.204][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:23.206][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:23.214][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:23.216][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:23.218][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:23.220][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:02:23.223][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:23.225][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:23.227][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:23.228][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:23.230][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:23.232][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:23.233][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:23.235][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:23.236][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:02:23.238][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:02:23.239][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:23.240][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:23.242][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:02:23.243][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:02:23.244][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:23.245][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:23.247][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:02:23.248][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:02:23.249][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:23.250][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:23.252][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:02:23.253][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:02:23.254][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:23.255][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:23.256][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:02:23.257][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:02:23.258][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:23.259][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:23.260][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:02:23.261][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:02:23.262][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:23.263][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:23.264][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:02:23.265][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:02:23.266][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:23.267][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:23.268][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:02:23.269][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:02:23.270][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:23.271][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:23.272][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:02:23.273][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:02:23.274][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:23.275][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:23.276][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:02:23.277][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:23.278][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:23.279][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:23.280][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:02:23.281][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:23.282][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:23.283][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:23.284][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:23.285][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:23.286][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:23.287][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:23.288][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:23.289][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:23.290][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:23.291][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:23.292][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:02:23.293][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:02:23.294][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:23.294][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:23.296][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:02:23.297][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:02:23.298][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:23.299][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:23.300][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:02:23.301][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:02:23.301][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:23.302][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:23.304][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:02:23.305][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:02:23.305][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:23.306][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:23.307][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:02:23.308][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:02:23.309][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:23.310][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:23.311][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:02:23.312][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:02:23.313][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:23.314][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:23.315][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:23.316][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:23.317][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:23.318][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:23.319][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:23.320][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:23.321][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:23.322][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:23.323][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:23.324][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:23.325][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:23.325][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:23.326][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:23.327][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:23.328][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:23.329][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:23.330][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:23.331][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:23.332][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:23.333][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:23.334][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:23.335][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:23.336][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:23.337][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:23.338][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:23.339][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:23.340][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:23.340][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:23.342][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:23.343][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:23.343][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:23.344][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:23.345][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:23.346][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:23.347][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:23.348][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:23.349][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:23.350][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:23.351][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:23.352][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:23.353][self$createEntryFromContent] Accession numbers: 160202.
biodb.TRACE[2025-08-30 16:02:23.354][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:23.355][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:23.356][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:23.357][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:23.358][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:23.359][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:23.360][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:23.360][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:23.361][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:23.362][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:23.363][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:23.364][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:23.365][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:23.366][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:23.367][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:23.379][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:23.380][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:23.380][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:23.381][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:02:23.382][private$loadEntries] Creating entries from ids [1]: "160393".
biodb.DEBUG[2025-08-30 16:02:23.383][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-08-30 16:02:23.385][cch$loadFileContent] Trying to load 1 files from cache: [1]: "160393".
biodb.TRACE[2025-08-30 16:02:23.386][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-08-30 16:02:23.387][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-08-30 16:02:23.388][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-30 16:02:23.389][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-08-30 16:02:23.390][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-08-30 16:02:23.391][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-08-30 16:02:23.393][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:23.394][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:23.395][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:23.399][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:23.400][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:23.400][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:23.401][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:02:23.402][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=160393".
biodb.DEBUG[2025-08-30 16:02:23.405][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-08-30 16:02:23.406][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-08-30 16:02:23.407][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=160393".
biodb.TRACE[2025-08-30 16:02:23.753][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=160393).
biodb.DEBUG[2025-08-30 16:02:24.093][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-08-30 16:02:24.097][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/e0266c32050b31cda3d5e01c2d907fcd.content"
biodb.TRACE[2025-08-30 16:02:24.105][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/e0266c32050b31cda3d5e01c2d907fcd.request"
biodb.TRACE[2025-08-30 16:02:24.110][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/160393.xml"
biodb.DEBUG[2025-08-30 16:02:24.113][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-08-30 16:02:24.116][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-30 16:02:24.118][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-30 16:02:24.122][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:24.124][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:24.126][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:24.135][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:24.137][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:24.139][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:24.141][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:02:24.145][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:24.146][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:24.148][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:24.149][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:24.151][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:24.153][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:24.154][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:24.156][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:24.157][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:02:24.159][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:02:24.160][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:24.161][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:24.163][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:02:24.164][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:02:24.165][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:24.166][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:24.168][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:02:24.169][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:02:24.170][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:24.171][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:24.173][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:02:24.174][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:02:24.175][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:24.176][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:24.177][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:02:24.178][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:02:24.179][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:24.180][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:24.181][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:02:24.182][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:02:24.183][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:24.184][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:24.185][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:02:24.186][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:02:24.187][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:24.188][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:24.189][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:02:24.190][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:02:24.191][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:24.192][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:24.193][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:02:24.194][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:02:24.195][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:24.196][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:24.197][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:02:24.198][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:24.199][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:24.200][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:24.201][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:02:24.202][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:24.203][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:24.204][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:24.205][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:24.206][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:24.207][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:24.208][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:24.209][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:24.210][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:24.211][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:24.212][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:24.213][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:02:24.214][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:02:24.215][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:24.215][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:24.217][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:02:24.218][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:02:24.219][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:24.220][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:24.221][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:02:24.222][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:02:24.222][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:24.223][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:24.224][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:02:24.225][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:02:24.226][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:24.227][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:24.228][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:02:24.229][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:02:24.230][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:24.231][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:24.232][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:02:24.233][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:02:24.234][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:24.235][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:24.236][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:24.237][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:24.238][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:24.239][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:24.240][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:24.241][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:24.242][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:24.243][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:24.244][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:24.245][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:24.246][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:24.247][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:24.247][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:24.248][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:24.249][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:24.250][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:24.251][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:24.252][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:24.253][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:24.254][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:24.255][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:24.256][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:24.257][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:24.258][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:24.259][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:24.260][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:24.261][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:24.262][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:24.263][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:24.264][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:24.265][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:24.266][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:24.267][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:24.268][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:24.269][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:24.269][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:24.270][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:24.271][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:24.272][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:24.273][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:24.274][self$createEntryFromContent] Accession numbers: 160393.
biodb.TRACE[2025-08-30 16:02:24.275][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:24.276][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:24.277][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:24.278][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:24.279][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:24.280][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:24.281][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:24.282][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:24.283][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:24.284][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:24.285][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:24.286][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:24.287][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:24.287][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:24.288][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:24.293][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:24.293][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:24.294][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:24.295][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:02:24.296][private$loadEntries] Creating entries from ids [1]: "160991".
biodb.DEBUG[2025-08-30 16:02:24.297][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-08-30 16:02:24.299][cch$loadFileContent] Trying to load 1 files from cache: [1]: "160991".
biodb.TRACE[2025-08-30 16:02:24.300][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-08-30 16:02:24.301][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-08-30 16:02:24.302][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-30 16:02:24.303][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-08-30 16:02:24.304][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-08-30 16:02:24.305][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-08-30 16:02:24.307][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:24.308][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:24.309][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:24.313][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:24.314][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:24.315][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:24.316][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:02:24.317][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=160991".
biodb.DEBUG[2025-08-30 16:02:24.319][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-08-30 16:02:24.320][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-08-30 16:02:24.322][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=160991".
biodb.TRACE[2025-08-30 16:02:24.668][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=160991).
biodb.DEBUG[2025-08-30 16:02:25.005][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-08-30 16:02:25.010][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/6bad8d3e957240d90a71edc1329f8f37.content"
biodb.TRACE[2025-08-30 16:02:25.017][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/6bad8d3e957240d90a71edc1329f8f37.request"
biodb.TRACE[2025-08-30 16:02:25.023][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/160991.xml"
biodb.DEBUG[2025-08-30 16:02:25.026][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-08-30 16:02:25.029][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-30 16:02:25.032][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-30 16:02:25.035][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:25.037][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:25.039][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:25.049][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:25.051][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:25.052][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:25.054][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:02:25.058][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:25.060][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:25.061][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:25.063][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:25.065][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:25.066][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:25.068][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:25.069][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:25.071][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:02:25.072][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:02:25.073][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:25.075][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:25.076][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:02:25.078][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:02:25.079][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:25.080][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:25.081][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:02:25.082][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:02:25.084][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:25.085][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:25.086][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:02:25.087][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:02:25.088][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:25.089][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:25.091][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:02:25.092][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:02:25.093][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:25.094][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:25.095][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:02:25.096][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:02:25.097][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:25.098][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:25.099][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:02:25.100][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:02:25.101][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:25.101][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:25.103][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:02:25.104][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:02:25.105][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:25.105][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:25.106][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:02:25.107][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:02:25.108][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:25.109][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:25.110][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:02:25.111][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:25.112][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:25.113][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:25.114][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:02:25.115][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:25.116][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:25.117][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:25.118][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:25.119][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:25.120][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:25.121][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:25.122][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:25.123][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:25.124][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:25.125][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:25.126][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:02:25.127][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:02:25.128][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:25.129][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:25.130][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:02:25.131][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:02:25.132][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:25.133][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:25.134][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:02:25.135][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:02:25.136][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:25.137][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:25.138][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:02:25.139][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:02:25.140][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:25.141][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:25.142][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:02:25.143][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:02:25.144][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:25.144][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:25.146][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:02:25.157][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:02:25.158][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:25.158][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:25.159][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:25.160][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:25.161][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:25.162][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:25.163][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:25.164][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:25.165][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:25.166][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:25.167][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:25.168][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:25.169][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:25.170][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:25.170][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:25.171][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:25.172][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:25.173][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:25.174][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:25.175][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:25.176][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:25.177][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:25.178][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:25.179][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:25.180][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:25.181][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:25.182][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:25.183][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:25.183][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:25.184][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:25.185][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:25.186][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:25.187][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:25.188][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:25.189][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:25.190][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:25.191][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:25.192][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:25.193][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:25.194][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:25.195][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:25.196][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:25.197][self$createEntryFromContent] Accession numbers: 160991.
biodb.TRACE[2025-08-30 16:02:25.198][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:25.198][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:25.199][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:25.200][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:25.201][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:25.202][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:25.203][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:25.204][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:25.205][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:25.206][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:25.207][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:25.208][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:25.209][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:25.209][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:25.210][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:25.214][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:25.215][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:25.216][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:25.217][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:02:25.218][private$loadEntries] Creating entries from ids [1]: "164975".
biodb.DEBUG[2025-08-30 16:02:25.219][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-08-30 16:02:25.220][cch$loadFileContent] Trying to load 1 files from cache: [1]: "164975".
biodb.TRACE[2025-08-30 16:02:25.222][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-08-30 16:02:25.223][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-08-30 16:02:25.224][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-30 16:02:25.225][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-08-30 16:02:25.226][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-08-30 16:02:25.226][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-08-30 16:02:25.229][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:25.230][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:25.231][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:25.235][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:25.235][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:25.236][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:25.237][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:02:25.238][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=164975".
biodb.DEBUG[2025-08-30 16:02:25.241][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-08-30 16:02:25.242][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-08-30 16:02:25.243][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=164975".
biodb.TRACE[2025-08-30 16:02:25.592][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=164975).
biodb.DEBUG[2025-08-30 16:02:25.930][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-08-30 16:02:25.935][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b1cbfaf7aef2d62dc8db3306c1521943.content"
biodb.TRACE[2025-08-30 16:02:25.942][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b1cbfaf7aef2d62dc8db3306c1521943.request"
biodb.TRACE[2025-08-30 16:02:25.947][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/164975.xml"
biodb.DEBUG[2025-08-30 16:02:25.950][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-08-30 16:02:25.953][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-30 16:02:25.956][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-30 16:02:25.959][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:25.961][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:25.963][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:25.973][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:25.974][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:25.976][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:25.978][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:02:25.982][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:25.984][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:25.985][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:25.987][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:25.988][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:25.990][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:25.991][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:25.993][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:25.994][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:02:25.996][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:02:25.997][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:25.998][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:26.000][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:02:26.001][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:02:26.002][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:26.004][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:26.005][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:02:26.006][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:02:26.007][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:26.008][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:26.010][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:02:26.011][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:02:26.012][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:26.013][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:26.014][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:02:26.015][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:02:26.016][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:26.017][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:26.019][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:02:26.020][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:02:26.021][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:26.022][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:26.023][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:02:26.024][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:02:26.025][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:26.025][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:26.027][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:02:26.028][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:02:26.029][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:26.029][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:26.030][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:02:26.031][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:02:26.032][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:26.033][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:26.034][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:02:26.035][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:26.036][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:26.037][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:26.038][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:02:26.039][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:26.040][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:26.041][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:26.042][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:26.043][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:26.044][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:26.045][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:26.046][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:26.047][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:26.048][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:26.049][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:26.050][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:02:26.051][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:02:26.052][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:26.053][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:26.054][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:02:26.055][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:02:26.056][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:26.057][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:26.058][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:02:26.059][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:02:26.060][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:26.061][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:26.062][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:02:26.063][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:02:26.064][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:26.065][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:26.066][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:02:26.067][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:02:26.068][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:26.069][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:26.070][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:02:26.071][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:02:26.072][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:26.073][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:26.074][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:26.075][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:26.076][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:26.076][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:26.077][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:26.078][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:26.079][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:26.080][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:26.081][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:26.082][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:26.083][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:26.084][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:26.085][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:26.086][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:26.087][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:26.088][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:26.089][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:26.090][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:26.091][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:26.092][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:26.093][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:26.094][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:26.094][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:26.095][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:26.096][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:26.097][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:26.098][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:26.099][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:26.100][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:26.101][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:26.102][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:26.103][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:26.104][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:26.105][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:26.106][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:26.107][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:26.108][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:26.109][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:26.110][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:26.111][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:26.112][self$createEntryFromContent] Accession numbers: 164975.
biodb.TRACE[2025-08-30 16:02:26.113][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:26.114][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:26.115][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:26.116][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:26.116][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:26.117][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:26.118][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:26.119][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:26.120][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:26.121][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:26.122][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:26.123][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:26.124][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:26.125][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:26.126][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:26.130][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:26.131][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:26.132][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:26.133][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:02:26.134][private$loadEntries] Creating entries from ids [1]: "164994".
biodb.DEBUG[2025-08-30 16:02:26.135][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-08-30 16:02:26.136][cch$loadFileContent] Trying to load 1 files from cache: [1]: "164994".
biodb.TRACE[2025-08-30 16:02:26.137][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-08-30 16:02:26.138][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-08-30 16:02:26.139][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-30 16:02:26.140][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-08-30 16:02:26.141][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-08-30 16:02:26.142][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-08-30 16:02:26.145][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:26.146][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:26.146][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:26.151][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:26.151][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:26.152][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:26.153][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:02:26.154][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=164994".
biodb.DEBUG[2025-08-30 16:02:26.157][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-08-30 16:02:26.158][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-08-30 16:02:26.159][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=164994".
biodb.TRACE[2025-08-30 16:02:26.499][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=164994).
biodb.DEBUG[2025-08-30 16:02:26.841][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-08-30 16:02:26.846][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/c2789f33696a1a62a1d6cd81e3041cd1.content"
biodb.TRACE[2025-08-30 16:02:26.853][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/c2789f33696a1a62a1d6cd81e3041cd1.request"
biodb.TRACE[2025-08-30 16:02:26.858][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/164994.xml"
biodb.DEBUG[2025-08-30 16:02:26.861][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-08-30 16:02:26.864][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-30 16:02:26.866][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-30 16:02:26.870][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:26.872][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:26.874][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:26.884][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:26.885][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:26.887][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:26.889][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:02:26.893][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:26.895][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:26.896][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:26.898][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:26.900][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:26.901][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:26.903][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:26.904][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:26.906][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:02:26.907][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:02:26.909][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:26.910][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:26.911][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:02:26.913][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:02:26.914][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:26.915][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:26.916][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:02:26.918][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:02:26.919][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:26.920][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:26.921][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:02:26.933][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:02:26.934][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:26.935][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:26.936][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:02:26.937][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:02:26.938][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:26.939][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:26.940][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:02:26.941][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:02:26.942][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:26.943][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:26.944][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:02:26.945][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:02:26.946][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:26.947][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:26.948][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:02:26.949][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:02:26.950][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:26.951][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:26.952][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:02:26.953][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:02:26.954][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:26.954][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:26.956][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:02:26.957][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:26.957][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:26.958][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:26.960][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:02:26.961][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:26.961][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:26.962][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:26.963][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:26.964][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:26.965][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:26.966][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:26.967][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:26.968][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:26.969][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:26.970][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:26.971][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:02:26.972][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:02:26.973][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:26.974][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:26.975][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:02:26.976][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:02:26.977][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:26.978][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:26.979][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:02:26.980][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:02:26.981][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:26.982][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:26.983][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:02:26.984][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:02:26.985][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:26.986][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:26.987][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:02:26.988][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:02:26.989][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:26.990][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:26.991][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:02:26.992][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:02:26.993][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:26.994][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:26.995][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:26.996][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:26.996][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:26.997][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:26.998][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:26.999][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:27.000][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:27.001][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:27.002][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:27.003][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:27.004][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:27.005][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:27.006][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:27.007][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:27.008][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:27.009][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:27.010][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:27.011][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:27.011][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:27.012][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:27.013][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:27.014][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:27.015][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:27.016][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:27.017][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:27.018][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:27.019][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:27.020][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:27.021][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:27.022][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:27.023][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:27.024][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:27.025][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:27.026][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:27.027][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:27.027][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:27.028][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:27.029][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:27.030][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:27.031][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:27.032][self$createEntryFromContent] Accession numbers: 164994.
biodb.TRACE[2025-08-30 16:02:27.033][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:27.034][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:27.035][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:27.036][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:27.037][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:27.038][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:27.039][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:27.040][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:27.041][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:27.042][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:27.043][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:27.044][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:27.044][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:27.045][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:27.046][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:27.050][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:27.051][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:27.052][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:27.053][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:02:27.054][private$loadEntries] Creating entries from ids [1]: "169251".
biodb.DEBUG[2025-08-30 16:02:27.055][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-08-30 16:02:27.056][cch$loadFileContent] Trying to load 1 files from cache: [1]: "169251".
biodb.TRACE[2025-08-30 16:02:27.058][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-08-30 16:02:27.059][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-08-30 16:02:27.060][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-30 16:02:27.061][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-08-30 16:02:27.062][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-08-30 16:02:27.063][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-08-30 16:02:27.065][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:27.066][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:27.067][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:27.071][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:27.072][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:27.073][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:27.073][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:02:27.075][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=169251".
biodb.DEBUG[2025-08-30 16:02:27.077][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-08-30 16:02:27.078][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-08-30 16:02:27.079][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=169251".
biodb.TRACE[2025-08-30 16:02:27.420][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=169251).
biodb.DEBUG[2025-08-30 16:02:27.756][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-08-30 16:02:27.760][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/06c85ce8d5c9a410c27ad425a575abe7.content"
biodb.TRACE[2025-08-30 16:02:27.767][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/06c85ce8d5c9a410c27ad425a575abe7.request"
biodb.TRACE[2025-08-30 16:02:27.773][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/169251.xml"
biodb.DEBUG[2025-08-30 16:02:27.776][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-08-30 16:02:27.779][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-30 16:02:27.781][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-30 16:02:27.785][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:27.787][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:27.789][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:27.799][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:27.801][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:27.802][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:27.804][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:02:27.808][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:27.809][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:27.811][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:27.813][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:27.815][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:27.816][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:27.818][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:27.819][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:27.820][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:02:27.822][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:02:27.823][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:27.824][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:27.826][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:02:27.827][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:02:27.829][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:27.830][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:27.831][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:02:27.832][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:02:27.833][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:27.835][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:27.836][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:02:27.837][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:02:27.838][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:27.839][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:27.840][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:02:27.842][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:02:27.843][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:27.844][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:27.845][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:02:27.846][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:02:27.847][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:27.848][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:27.849][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:02:27.850][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:02:27.851][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:27.852][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:27.853][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:02:27.854][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:02:27.855][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:27.856][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:27.857][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:02:27.858][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:02:27.859][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:27.859][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:27.861][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:02:27.862][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:27.863][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:27.863][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:27.865][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:02:27.866][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:27.866][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:27.867][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:27.868][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:27.869][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:27.870][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:27.871][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:27.872][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:27.873][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:27.874][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:27.875][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:27.876][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:02:27.877][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:02:27.878][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:27.879][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:27.880][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:02:27.881][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:02:27.882][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:27.883][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:27.884][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:02:27.885][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:02:27.886][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:27.887][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:27.888][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:02:27.889][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:02:27.890][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:27.891][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:27.892][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:02:27.893][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:02:27.894][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:27.895][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:27.896][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:02:27.897][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:02:27.898][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:27.899][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:27.900][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:27.901][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:27.902][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:27.903][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:27.904][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:27.905][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:27.906][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:27.907][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:27.908][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:27.909][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:27.909][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:27.910][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:27.911][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:27.912][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:27.913][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:27.914][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:27.915][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:27.916][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:27.917][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:27.918][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:27.919][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:27.920][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:27.921][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:27.922][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:27.923][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:27.924][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:27.925][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:27.926][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:27.927][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:27.928][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:27.929][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:27.929][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:27.930][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:27.931][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:27.932][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:27.933][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:27.934][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:27.935][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:27.936][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:27.937][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:27.938][self$createEntryFromContent] Accession numbers: 169251.
biodb.TRACE[2025-08-30 16:02:27.939][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:27.940][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:27.941][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:27.942][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:27.943][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:27.944][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:27.945][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:27.946][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:27.947][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:27.948][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:27.949][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:27.950][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:27.951][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:27.951][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:27.952][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:27.957][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:27.958][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:27.958][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:27.959][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:02:27.960][private$loadEntries] Creating entries from ids [1]: "224261".
biodb.DEBUG[2025-08-30 16:02:27.961][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-08-30 16:02:27.963][cch$loadFileContent] Trying to load 1 files from cache: [1]: "224261".
biodb.TRACE[2025-08-30 16:02:27.964][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-08-30 16:02:27.965][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-08-30 16:02:27.966][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-30 16:02:27.967][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-08-30 16:02:27.968][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-08-30 16:02:27.969][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-08-30 16:02:27.979][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:27.980][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:27.981][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:27.985][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:27.986][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:27.987][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:27.987][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:02:27.989][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=224261".
biodb.DEBUG[2025-08-30 16:02:27.991][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-08-30 16:02:27.992][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-08-30 16:02:27.993][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=224261".
biodb.TRACE[2025-08-30 16:02:28.334][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=224261).
biodb.DEBUG[2025-08-30 16:02:28.673][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-08-30 16:02:28.677][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/7ba99c29fa5d3888a543698650c3997e.content"
biodb.TRACE[2025-08-30 16:02:28.684][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/7ba99c29fa5d3888a543698650c3997e.request"
biodb.TRACE[2025-08-30 16:02:28.690][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/224261.xml"
biodb.DEBUG[2025-08-30 16:02:28.693][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-08-30 16:02:28.696][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-30 16:02:28.698][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-30 16:02:28.702][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:28.704][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:28.706][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:28.715][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:28.717][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:28.719][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:28.720][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:02:28.725][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:28.726][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:28.728][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:28.729][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:28.731][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:28.733][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:28.734][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:28.736][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:28.737][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:02:28.739][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:02:28.740][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:28.741][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:28.743][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:02:28.744][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:02:28.745][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:28.747][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:28.748][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:02:28.749][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:02:28.750][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:28.751][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:28.753][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:02:28.754][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:02:28.755][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:28.756][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:28.757][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:02:28.758][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:02:28.759][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:28.760][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:28.761][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:02:28.762][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:02:28.763][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:28.764][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:28.765][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:02:28.766][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:02:28.767][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:28.768][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:28.769][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:02:28.770][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:02:28.771][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:28.772][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:28.773][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:02:28.774][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:02:28.775][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:28.776][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:28.777][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:02:28.778][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:28.779][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:28.780][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:28.781][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:02:28.782][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:28.783][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:28.784][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:28.785][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:28.786][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:28.787][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:28.788][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:28.789][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:28.790][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:28.791][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:28.792][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:28.793][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:02:28.794][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:02:28.794][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:28.795][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:28.797][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:02:28.798][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:02:28.799][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:28.799][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:28.800][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:02:28.801][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:02:28.802][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:28.803][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:28.804][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:02:28.805][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:02:28.806][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:28.807][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:28.808][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:02:28.809][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:02:28.810][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:28.811][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:28.812][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:02:28.813][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:02:28.814][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:28.815][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:28.816][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:28.817][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:28.818][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:28.819][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:28.820][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:28.821][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:28.822][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:28.823][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:28.824][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:28.824][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:28.825][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:28.826][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:28.827][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:28.828][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:28.829][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:28.830][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:28.831][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:28.832][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:28.833][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:28.834][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:28.835][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:28.836][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:28.837][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:28.838][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:28.839][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:28.840][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:28.840][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:28.841][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:28.842][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:28.843][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:28.844][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:28.845][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:28.846][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:28.847][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:28.848][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:28.849][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:28.850][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:28.851][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:28.852][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:28.853][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:28.854][self$createEntryFromContent] Accession numbers: 224261.
biodb.TRACE[2025-08-30 16:02:28.855][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:28.856][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:28.857][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:28.858][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:28.858][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:28.859][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:28.860][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:28.861][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:28.862][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:28.863][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:28.864][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:28.865][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:28.867][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-08-30 16:02:28.870][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-08-30 16:02:28.871][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-08-30 16:02:28.872][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39%2A&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.TRACE[2025-08-30 16:02:29.206][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39%2A&searchCategory=MASS&maximumResults=0&starsCategory=ALL).
biodb.DEBUG[2025-08-30 16:02:29.596][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2025-08-30 16:02:29.599][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/357534c211a0779cb44e196fcebae6c0.content"
biodb.TRACE[2025-08-30 16:02:29.606][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/357534c211a0779cb44e196fcebae6c0.request"
biodb.DEBUG[2025-08-30 16:02:29.610][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:29.612][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:29.614][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:29.621][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:29.623][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:29.624][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:29.626][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:02:29.628][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:29.630][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:29.632][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:29.634][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:29.635][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:29.637][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:29.639][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:29.641][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:29.642][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:29.644][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:29.645][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:29.647][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:29.648][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:29.650][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:29.651][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:29.656][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:29.658][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:29.659][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:29.660][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:02:29.661][private$loadEntries] Creating entries from ids [1]: "71954".
biodb.DEBUG[2025-08-30 16:02:29.662][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-08-30 16:02:29.664][cch$loadFileContent] Trying to load 1 files from cache: [1]: "71954".
biodb.TRACE[2025-08-30 16:02:29.666][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-08-30 16:02:29.667][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-08-30 16:02:29.668][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-30 16:02:29.669][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-08-30 16:02:29.670][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-08-30 16:02:29.671][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-08-30 16:02:29.674][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:29.675][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:29.676][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:29.680][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:29.681][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:29.682][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:29.682][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:02:29.684][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=71954".
biodb.DEBUG[2025-08-30 16:02:29.686][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-08-30 16:02:29.687][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-08-30 16:02:29.688][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=71954".
biodb.TRACE[2025-08-30 16:02:30.031][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=71954).
biodb.DEBUG[2025-08-30 16:02:30.404][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-08-30 16:02:30.408][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/58f24f0de3d9b6c69a2b349522c5c9b3.content"
biodb.TRACE[2025-08-30 16:02:30.415][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/58f24f0de3d9b6c69a2b349522c5c9b3.request"
biodb.TRACE[2025-08-30 16:02:30.421][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/71954.xml"
biodb.DEBUG[2025-08-30 16:02:30.424][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-08-30 16:02:30.427][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-30 16:02:30.429][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-30 16:02:30.433][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:30.435][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:30.437][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:30.447][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:30.448][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:30.450][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:30.452][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:02:30.456][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:30.458][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:30.459][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:30.461][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:30.463][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:30.464][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:30.466][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:30.467][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:30.469][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:02:30.470][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:02:30.471][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:30.473][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:30.474][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:02:30.475][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:02:30.477][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:30.478][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:30.479][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:02:30.480][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:02:30.481][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:30.483][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:30.484][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:02:30.485][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:02:30.486][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:30.487][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:30.488][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:02:30.489][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:02:30.490][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:30.491][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:30.493][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:02:30.494][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:02:30.495][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:30.496][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:30.497][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:02:30.498][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:02:30.499][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:30.499][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:30.501][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:02:30.502][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:02:30.503][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:30.503][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:30.505][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:02:30.506][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:02:30.506][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:30.507][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:30.509][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:02:30.510][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:30.510][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:30.511][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:30.512][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:02:30.514][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:30.514][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:30.515][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:30.516][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:30.517][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:30.518][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:30.519][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:30.532][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:30.534][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:30.535][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:30.536][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:30.537][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:02:30.538][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:02:30.539][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:30.540][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:30.541][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:02:30.542][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:02:30.543][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:30.544][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:30.545][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:02:30.546][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:02:30.547][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:30.548][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:30.549][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:02:30.550][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:02:30.551][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:30.551][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:30.552][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:02:30.553][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:02:30.554][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:30.555][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:30.556][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:02:30.557][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:02:30.558][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:30.559][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:30.560][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:30.561][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:30.562][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:30.563][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:30.564][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:30.565][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:30.566][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:30.567][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:30.568][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:30.569][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:30.569][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:30.570][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:30.571][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:30.572][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:30.573][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:30.574][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:30.575][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:30.576][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:30.577][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:30.578][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:30.579][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:30.580][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:30.581][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:30.582][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:30.583][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:30.584][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:30.584][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:30.585][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:30.586][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:30.587][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:30.588][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:30.589][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:30.590][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:30.591][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:30.592][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:30.593][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:30.594][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:30.595][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:30.596][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:30.597][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:30.598][self$createEntryFromContent] Accession numbers: 71954.
biodb.TRACE[2025-08-30 16:02:30.599][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:30.600][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:30.601][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:30.602][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:30.602][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:30.603][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:30.604][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:30.605][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:30.606][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:30.607][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:30.608][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:30.609][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:30.610][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:30.611][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:30.612][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:30.616][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:30.617][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:30.618][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:30.618][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:02:30.620][private$loadEntries] Creating entries from ids [1]: "197612".
biodb.DEBUG[2025-08-30 16:02:30.620][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-08-30 16:02:30.622][cch$loadFileContent] Trying to load 1 files from cache: [1]: "197612".
biodb.TRACE[2025-08-30 16:02:30.623][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-08-30 16:02:30.624][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-08-30 16:02:30.625][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-30 16:02:30.626][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-08-30 16:02:30.627][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-08-30 16:02:30.628][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-08-30 16:02:30.631][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:30.631][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:30.632][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:30.636][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:30.637][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:30.638][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:30.639][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:02:30.640][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=197612".
biodb.DEBUG[2025-08-30 16:02:30.643][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-08-30 16:02:30.644][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-08-30 16:02:30.645][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=197612".
biodb.TRACE[2025-08-30 16:02:31.047][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=197612).
biodb.DEBUG[2025-08-30 16:02:31.490][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-08-30 16:02:31.494][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/d602b140c80212c04a1a2ba98ef7dc4f.content"
biodb.TRACE[2025-08-30 16:02:31.501][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/d602b140c80212c04a1a2ba98ef7dc4f.request"
biodb.TRACE[2025-08-30 16:02:31.507][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/197612.xml"
biodb.DEBUG[2025-08-30 16:02:31.510][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-08-30 16:02:31.513][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-30 16:02:31.515][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-30 16:02:31.519][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:31.521][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:31.523][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:31.532][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:31.534][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:31.536][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:31.538][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:02:31.541][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:31.543][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:31.545][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:31.547][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:31.548][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:31.550][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:31.551][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:31.553][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:31.555][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:02:31.556][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:02:31.557][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:31.559][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:31.560][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:02:31.561][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:02:31.563][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:31.564][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:31.565][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:02:31.566][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:02:31.568][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:31.569][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:31.570][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:02:31.571][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:02:31.572][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:31.574][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:31.575][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:02:31.576][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:02:31.577][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:31.578][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:31.579][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:02:31.580][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:02:31.581][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:31.582][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:31.583][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:02:31.584][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:02:31.585][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:31.586][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:31.587][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:02:31.588][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:02:31.589][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:31.590][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:31.591][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:02:31.592][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:02:31.593][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:31.594][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:31.595][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:02:31.596][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:31.597][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:31.598][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:31.599][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:02:31.600][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:31.601][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:31.602][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:31.603][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:31.604][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:31.605][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:31.606][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:31.607][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:31.608][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:31.609][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:31.610][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:31.611][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:02:31.612][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:02:31.613][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:31.614][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:31.615][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:02:31.616][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:02:31.617][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:31.618][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:31.619][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:02:31.620][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:02:31.621][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:31.622][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:31.623][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:02:31.624][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:02:31.625][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:31.625][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:31.627][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:02:31.628][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:02:31.628][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:31.629][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:31.630][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:02:31.631][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:02:31.632][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:31.633][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:31.634][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:31.635][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:31.636][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:31.637][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:31.638][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:31.639][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:31.640][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:31.641][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:31.642][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:31.643][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:31.644][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:31.645][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:31.646][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:31.647][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:31.648][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:31.648][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:31.649][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:31.650][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:31.651][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:31.652][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:31.653][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:31.654][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:31.655][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:31.656][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:31.657][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:31.658][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:31.659][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:31.660][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:31.661][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:31.662][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:31.663][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:31.664][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:31.665][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:31.666][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:31.667][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:31.667][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:31.668][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:31.669][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:31.670][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:31.671][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:31.672][self$createEntryFromContent] Accession numbers: 197612.
biodb.TRACE[2025-08-30 16:02:31.673][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:31.674][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:31.675][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:31.676][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:31.677][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:31.678][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:31.679][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:31.680][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:31.681][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:31.682][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:31.683][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:31.684][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:31.685][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-08-30 16:02:31.686][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:31.687][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:31.688][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:31.692][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:31.693][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:31.694][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:31.695][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:02:31.696][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:31.697][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:31.698][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:31.699][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:31.700][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:31.701][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:31.701][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:31.702][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:31.703][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:02:31.704][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:02:31.705][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:02:31.706][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:02:31.707][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:02:31.708][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:31.709][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:31.710][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:31.711][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:31.712][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:31.713][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:31.714][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:31.714][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:31.715][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:02:31.716][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:02:31.717][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:31.718][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:31.719][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:31.720][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:31.721][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-30 16:02:31.722][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:31.723][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:31.724][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:31.725][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:31.726][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:31.727][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:31.728][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:31.728][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:31.729][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:31.730][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:31.731][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:31.732][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:31.733][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [7799].
biodb.DEBUG[2025-08-30 16:02:31.735][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:31.735][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:31.736][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:31.748][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:31.749][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:31.750][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:31.750][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:02:31.751][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:31.752][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:31.753][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:31.754][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:31.755][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:31.756][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:31.757][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:31.758][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:31.759][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:02:31.760][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:02:31.761][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:02:31.761][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:02:31.762][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:02:31.763][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:31.764][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:31.765][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:31.766][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:31.767][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:31.768][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:31.769][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:31.770][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:31.771][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:02:31.772][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:02:31.772][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:31.773][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:31.774][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:31.775][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:31.776][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-30 16:02:31.777][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:31.778][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:31.779][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:31.780][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:31.781][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:31.782][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:31.783][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:31.784][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:31.784][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:31.785][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:31.786][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:31.787][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:31.788][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [71954].
biodb.DEBUG[2025-08-30 16:02:31.789][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:31.790][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:31.791][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:31.795][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:31.796][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:31.797][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:31.798][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:02:31.799][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:31.800][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:31.801][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:31.802][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:31.802][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:31.803][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:31.804][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:31.805][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:31.806][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:02:31.807][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:02:31.808][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:02:31.809][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:02:31.810][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:02:31.811][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:31.812][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:31.813][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:31.813][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:31.814][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:31.815][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:31.816][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:31.817][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:31.818][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:02:31.819][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:02:31.820][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:31.821][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:31.822][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:31.823][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:31.824][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-30 16:02:31.825][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:31.826][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:31.826][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:31.827][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:31.828][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:31.829][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:31.830][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:31.831][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:31.832][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:31.833][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:31.834][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:31.835][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:31.836][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [197612].
biodb.DEBUG[2025-08-30 16:02:31.837][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-08-30 16:02:31.838][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-08-30 16:02:31.845][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:31.846][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:31.847][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:31.848][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:31.849][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:31.850][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:31.851][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:31.852][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:31.853][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:31.854][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:31.855][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:31.856][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:31.857][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:31.858][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:31.859][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:31.859][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:31.860][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:31.861][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:31.862][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:31.863][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:31.864][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:31.865][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:31.866][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:31.867][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:31.868][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:31.869][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:31.870][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:31.871][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:31.872][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:31.873][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:31.874][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:31.875][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:31.875][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:31.876][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:31.877][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:31.878][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:31.879][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:31.880][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:31.881][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:31.882][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:31.883][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:31.884][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:31.885][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:31.886][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:31.887][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:31.888][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:31.889][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:31.890][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:31.940][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:31.941][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:31.942][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:31.947][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:31.948][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:31.948][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:31.949][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:02:31.952][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.38*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-08-30 16:02:31.955][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-08-30 16:02:31.956][cch$loadFileContent] Trying to load 1 files from cache: [1]: "49f51d93ac229648aa454636918ce386".
biodb.TRACE[2025-08-30 16:02:31.957][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-08-30 16:02:31.959][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/49f51d93ac229648aa454636918ce386.content".
biodb.DEBUG[2025-08-30 16:02:31.962][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-08-30 16:02:31.964][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-08-30 16:02:31.966][cch$loadFileContent] Trying to load 1 files from cache: [1]: "121ea95906eb67bed88948c362686e4f".
biodb.TRACE[2025-08-30 16:02:31.967][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-08-30 16:02:31.968][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/121ea95906eb67bed88948c362686e4f.content".
biodb.DEBUG[2025-08-30 16:02:31.971][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:31.971][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:31.972][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:31.976][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:31.977][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:31.978][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:31.979][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:02:31.980][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:31.981][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:31.982][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:31.983][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:31.984][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:31.985][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:31.986][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:31.987][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:31.988][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:31.989][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:31.990][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:31.991][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:31.992][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:31.993][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:31.993][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:31.997][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:31.998][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:31.999][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:32.000][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:02:32.001][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:32.002][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:32.003][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:32.004][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:32.005][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:32.006][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:32.007][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:32.008][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:32.009][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:32.010][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:32.011][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:32.012][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:32.013][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:32.013][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:32.014][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:32.018][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:32.019][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:32.020][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:32.021][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:02:32.022][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:32.023][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:32.024][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:32.025][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:32.026][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:32.027][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:32.028][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:32.028][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:32.029][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:32.030][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:32.031][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:32.032][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:32.033][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-08-30 16:02:32.035][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:32.036][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:32.036][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:32.040][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:32.041][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:32.042][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:32.043][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:02:32.044][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:32.045][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:32.046][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:32.047][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:32.048][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:32.049][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:32.050][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:32.051][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:32.052][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:02:32.052][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:02:32.053][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:02:32.059][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:02:32.060][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:02:32.061][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:32.062][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:32.063][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:32.063][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:32.064][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:32.065][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:32.066][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:32.067][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:32.068][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:02:32.069][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:02:32.070][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:32.071][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:32.072][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:32.073][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:32.073][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-30 16:02:32.074][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:32.075][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:32.076][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:32.077][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:32.078][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:32.079][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:32.080][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:32.081][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:32.082][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:32.083][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:32.084][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:32.085][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:32.086][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4648].
biodb.DEBUG[2025-08-30 16:02:32.087][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:32.088][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:32.088][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:32.092][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:32.093][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:32.094][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:32.095][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:02:32.107][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:32.108][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:32.109][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:32.110][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:32.110][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:32.111][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:32.112][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:32.113][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:32.133][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:02:32.134][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:02:32.135][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:02:32.136][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:02:32.137][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:02:32.138][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:32.139][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:32.140][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:32.141][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:32.141][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:32.142][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:32.143][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:32.144][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:32.145][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:02:32.155][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:02:32.156][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:32.157][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:32.158][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:32.159][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:32.159][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-30 16:02:32.160][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:32.161][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:32.162][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:32.163][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:32.164][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:32.165][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:32.166][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:32.167][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:32.168][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:32.169][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:32.170][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:32.171][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:32.172][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-08-30 16:02:32.173][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:32.174][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:32.175][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:32.179][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:32.180][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:32.181][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:32.181][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:02:32.183][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:32.184][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:32.184][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:32.185][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:32.186][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:32.187][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:32.188][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:32.189][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:32.190][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:02:32.191][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:02:32.192][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:02:32.193][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:02:32.194][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:02:32.195][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:32.196][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:32.197][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:32.197][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:32.198][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:32.199][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:32.200][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:32.201][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:32.202][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:02:32.203][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:02:32.204][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:32.205][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:32.206][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:32.207][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:32.208][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-30 16:02:32.209][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:32.210][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:32.211][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:32.211][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:32.212][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:32.213][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:32.214][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:32.215][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:32.216][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:32.217][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:32.218][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:32.219][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:32.220][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [62447].
biodb.DEBUG[2025-08-30 16:02:32.221][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-08-30 16:02:32.222][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2025-08-30 16:02:32.224][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:32.225][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:32.226][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:32.230][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:32.231][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:32.231][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:32.232][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:02:32.235][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=480.29*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-08-30 16:02:32.238][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-08-30 16:02:32.239][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-08-30 16:02:32.241][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=480.29%2A&searchCategory=MONOISOTOPIC%20MASS&maximumResults=0&starsCategory=ALL".
biodb.TRACE[2025-08-30 16:02:32.575][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=480.29%2A&searchCategory=MONOISOTOPIC%20MASS&maximumResults=0&starsCategory=ALL).
biodb.DEBUG[2025-08-30 16:02:33.118][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2025-08-30 16:02:33.120][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/7269bbea581f1e243800f8ee4e0f4fdb.content"
biodb.TRACE[2025-08-30 16:02:33.123][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/7269bbea581f1e243800f8ee4e0f4fdb.request"
biodb.DEBUG[2025-08-30 16:02:33.126][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:33.127][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:33.128][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:33.132][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:33.133][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:33.134][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:33.135][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:02:33.136][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:33.137][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:33.138][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:33.139][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:33.139][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:33.140][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:33.141][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:33.142][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:33.143][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:33.144][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:33.145][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:33.146][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:33.147][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:33.148][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:33.149][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:33.153][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:33.154][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:33.155][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:33.155][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:02:33.157][private$loadEntries] Creating entries from ids [1]: "91601".
biodb.DEBUG[2025-08-30 16:02:33.157][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-08-30 16:02:33.159][cch$loadFileContent] Trying to load 1 files from cache: [1]: "91601".
biodb.TRACE[2025-08-30 16:02:33.160][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-08-30 16:02:33.161][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-08-30 16:02:33.162][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-30 16:02:33.163][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-08-30 16:02:33.164][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-08-30 16:02:33.165][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-08-30 16:02:33.168][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:33.168][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:33.169][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:33.173][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:33.174][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:33.175][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:33.176][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:02:33.177][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=91601".
biodb.DEBUG[2025-08-30 16:02:33.180][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-08-30 16:02:33.180][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-08-30 16:02:33.182][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=91601".
biodb.TRACE[2025-08-30 16:02:33.523][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=91601).
biodb.DEBUG[2025-08-30 16:02:33.856][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-08-30 16:02:33.858][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/aa7bc0b3048e5fb322307698a3f56fa6.content"
biodb.TRACE[2025-08-30 16:02:33.861][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/aa7bc0b3048e5fb322307698a3f56fa6.request"
biodb.TRACE[2025-08-30 16:02:33.863][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/91601.xml"
biodb.DEBUG[2025-08-30 16:02:33.865][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-08-30 16:02:33.866][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-30 16:02:33.867][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-30 16:02:33.868][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:33.869][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:33.870][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:33.875][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:33.875][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:33.876][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:33.877][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:02:33.879][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:33.880][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:33.881][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:33.882][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:33.883][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:33.884][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:33.885][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:33.886][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:33.887][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:02:33.888][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:02:33.889][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:33.890][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:33.891][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:02:33.892][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:02:33.893][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:33.894][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:33.895][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:02:33.896][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:02:33.897][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:33.898][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:33.899][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:02:33.900][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:02:33.901][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:33.902][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:33.903][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:02:33.904][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:02:33.905][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:33.906][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:33.907][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:02:33.908][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:02:33.909][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:33.910][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:33.911][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:02:33.912][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:02:33.923][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:33.924][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:33.925][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:02:33.926][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:02:33.927][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:33.928][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:33.929][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:02:33.930][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:02:33.931][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:33.932][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:33.934][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:02:33.935][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:33.936][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:33.936][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:33.938][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:02:33.939][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:33.939][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:33.940][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:33.941][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:33.942][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:33.943][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:33.944][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:33.945][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:33.946][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:33.947][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:33.948][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:33.949][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:02:33.950][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:02:33.951][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:33.952][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:33.953][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:02:33.954][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:02:33.955][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:33.956][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:33.957][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:02:33.958][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:02:33.959][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:33.959][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:33.961][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:02:33.962][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:02:33.962][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:33.963][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:33.964][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:02:33.965][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:02:33.966][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:33.967][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:33.968][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:02:33.969][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:02:33.970][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:33.971][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:33.972][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:33.973][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:33.974][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:33.975][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:33.976][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:33.977][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:33.978][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:33.979][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:33.979][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:33.980][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:33.981][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:33.982][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:33.983][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:33.984][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:33.985][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:33.986][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:33.987][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:33.988][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:33.989][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:33.990][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:33.991][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:33.992][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:33.993][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:33.993][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:33.994][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:33.995][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:33.996][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:33.997][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:33.998][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:33.999][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:34.000][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:34.001][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:34.002][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:34.003][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:34.004][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:34.005][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:34.006][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:34.007][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:34.008][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:34.009][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:34.010][self$createEntryFromContent] Accession numbers: 91601.
biodb.TRACE[2025-08-30 16:02:34.011][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:34.012][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:34.012][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:34.013][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:34.014][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:34.015][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:34.016][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:34.017][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:34.018][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:34.019][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:34.020][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:34.021][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:34.022][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:34.023][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:34.024][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:34.028][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:34.029][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:34.030][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:34.031][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:02:34.032][private$loadEntries] Creating entries from ids [1]: "95147".
biodb.DEBUG[2025-08-30 16:02:34.033][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-08-30 16:02:34.034][cch$loadFileContent] Trying to load 1 files from cache: [1]: "95147".
biodb.TRACE[2025-08-30 16:02:34.035][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-08-30 16:02:34.036][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-08-30 16:02:34.037][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-30 16:02:34.038][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-08-30 16:02:34.039][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-08-30 16:02:34.040][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-08-30 16:02:34.043][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:34.043][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:34.044][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:34.048][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:34.049][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:34.050][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:34.051][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:02:34.052][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=95147".
biodb.DEBUG[2025-08-30 16:02:34.055][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-08-30 16:02:34.056][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-08-30 16:02:34.057][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=95147".
biodb.TRACE[2025-08-30 16:02:34.409][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=95147).
biodb.DEBUG[2025-08-30 16:02:34.750][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-08-30 16:02:34.755][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/d5dbc153d74635342b8ea0e83790c39e.content"
biodb.TRACE[2025-08-30 16:02:34.763][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/d5dbc153d74635342b8ea0e83790c39e.request"
biodb.TRACE[2025-08-30 16:02:34.769][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/95147.xml"
biodb.DEBUG[2025-08-30 16:02:34.772][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-08-30 16:02:34.775][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-30 16:02:34.778][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-30 16:02:34.782][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:34.784][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:34.786][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:34.795][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:34.797][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:34.799][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:34.801][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:02:34.805][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:34.807][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:34.809][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:34.811][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:34.813][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:34.816][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:34.818][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:34.819][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:34.822][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:02:34.824][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:02:34.826][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:34.827][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:34.830][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:02:34.831][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:02:34.833][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:34.834][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:34.836][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:02:34.838][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:02:34.839][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:34.841][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:34.843][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:02:34.844][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:02:34.845][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:34.847][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:34.848][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:02:34.849][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:02:34.851][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:34.852][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:34.853][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:02:34.854][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:02:34.856][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:34.857][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:34.858][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:02:34.859][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:02:34.860][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:34.861][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:34.862][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:02:34.864][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:02:34.865][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:34.866][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:34.867][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:02:34.868][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:02:34.869][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:34.870][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:34.871][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:02:34.872][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:34.873][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:34.874][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:34.875][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:02:34.876][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:34.877][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:34.878][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:34.879][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:34.880][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:34.881][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:34.882][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:34.883][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:34.884][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:34.885][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:34.886][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:34.887][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:02:34.888][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:02:34.889][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:34.890][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:34.891][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:02:34.892][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:02:34.893][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:34.894][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:34.895][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:02:34.896][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:02:34.897][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:34.898][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:34.899][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:02:34.900][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:02:34.901][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:34.902][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:34.903][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:02:34.904][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:02:34.905][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:34.906][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:34.907][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:02:34.908][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:02:34.909][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:34.910][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:34.911][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:34.912][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:34.913][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:34.914][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:34.915][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:34.916][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:34.917][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:34.918][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:34.919][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:34.920][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:34.921][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:34.922][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:34.923][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:34.924][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:34.924][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:34.925][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:34.926][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:34.927][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:34.928][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:34.929][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:34.930][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:34.931][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:34.932][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:34.933][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:34.934][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:34.935][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:34.936][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:34.937][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:34.938][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:34.939][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:34.940][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:34.941][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:34.942][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:34.943][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:34.944][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:34.945][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:34.946][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:34.947][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:34.948][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:34.949][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:34.950][self$createEntryFromContent] Accession numbers: 95147.
biodb.TRACE[2025-08-30 16:02:34.951][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:34.952][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:34.953][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:34.953][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:34.954][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:34.955][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:34.956][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:34.957][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:34.958][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:34.959][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:34.960][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:34.961][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:34.962][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-08-30 16:02:34.964][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:34.965][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:34.966][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:34.970][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:34.971][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:34.972][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:34.973][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:02:34.974][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:34.975][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:34.976][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:34.977][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:34.978][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:34.979][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:34.980][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:34.980][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:34.981][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:02:34.982][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:02:34.983][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:02:34.984][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:02:34.985][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:02:34.986][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:34.987][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:34.988][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:34.989][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:34.990][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:34.991][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:34.992][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:34.993][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:34.994][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:02:35.018][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:02:35.019][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:35.020][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:35.021][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:35.022][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:35.023][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-30 16:02:35.024][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:35.025][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:35.026][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:35.027][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:35.028][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:35.029][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:35.030][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:35.031][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:35.032][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:35.033][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:35.034][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:35.035][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:35.036][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4781].
biodb.DEBUG[2025-08-30 16:02:35.037][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:35.038][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:35.039][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:35.043][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:35.044][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:35.045][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:35.046][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:02:35.047][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:35.048][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:35.049][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:35.050][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:35.051][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:35.052][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:35.053][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:35.054][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:35.055][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:02:35.056][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:02:35.056][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:02:35.057][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:02:35.058][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:02:35.059][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:35.060][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:35.061][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:35.062][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:35.063][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:35.064][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:35.065][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:35.066][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:35.067][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:02:35.068][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:02:35.069][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:35.070][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:35.070][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:35.071][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:35.072][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-30 16:02:35.073][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:35.074][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:35.075][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:35.076][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:35.077][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:35.078][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:35.079][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:35.080][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:35.081][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:35.082][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:35.083][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:35.084][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:35.085][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [91601].
biodb.DEBUG[2025-08-30 16:02:35.086][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:35.087][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:35.088][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:35.092][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:35.093][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:35.094][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:35.095][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:02:35.096][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:35.097][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:35.098][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:35.099][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:35.100][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:35.101][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:35.102][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:35.102][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:35.103][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:02:35.104][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:02:35.105][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:02:35.106][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:02:35.107][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:02:35.108][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:35.109][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:35.110][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:35.111][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:35.112][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:35.113][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:35.114][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:35.115][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:35.116][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:02:35.117][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:02:35.117][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:35.118][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:35.119][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:35.120][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:35.121][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-30 16:02:35.122][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:35.123][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:35.124][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:35.125][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:35.126][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:35.127][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:35.128][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:35.129][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:35.130][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:35.131][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:35.132][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:35.133][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:35.134][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [95147].
biodb.DEBUG[2025-08-30 16:02:35.135][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-08-30 16:02:35.136][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2025-08-30 16:02:35.138][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:35.139][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:35.140][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:35.144][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:35.145][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:35.146][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:35.147][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:02:35.150][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.17*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-08-30 16:02:35.153][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-08-30 16:02:35.154][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-08-30 16:02:35.156][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.17%2A&searchCategory=MONOISOTOPIC%20MASS&maximumResults=0&starsCategory=ALL".
biodb.TRACE[2025-08-30 16:02:35.491][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.17%2A&searchCategory=MONOISOTOPIC%20MASS&maximumResults=0&starsCategory=ALL).
biodb.DEBUG[2025-08-30 16:02:35.832][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2025-08-30 16:02:35.837][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/acfa4b558978abf12409c2b56e678d03.content"
biodb.TRACE[2025-08-30 16:02:35.845][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/acfa4b558978abf12409c2b56e678d03.request"
biodb.DEBUG[2025-08-30 16:02:35.852][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:35.854][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:35.856][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:35.866][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:35.868][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:35.871][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:35.873][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:02:35.875][private$loadEntries] Creating entries from ids [1]: "636".
biodb.DEBUG[2025-08-30 16:02:35.877][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-08-30 16:02:35.880][cch$loadFileContent] Trying to load 1 files from cache: [1]: "636".
biodb.TRACE[2025-08-30 16:02:35.882][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-08-30 16:02:35.884][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-08-30 16:02:35.886][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-30 16:02:35.888][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-08-30 16:02:35.889][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-08-30 16:02:35.891][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-08-30 16:02:35.895][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:35.896][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:35.897][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:35.903][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:35.904][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:35.906][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:35.907][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:02:35.908][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=636".
biodb.DEBUG[2025-08-30 16:02:35.911][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-08-30 16:02:35.912][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-08-30 16:02:35.914][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=636".
biodb.TRACE[2025-08-30 16:02:36.251][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=636).
biodb.DEBUG[2025-08-30 16:02:36.594][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-08-30 16:02:36.598][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/ccb008951a89970d7f0e2dfe6ae3860d.content"
biodb.TRACE[2025-08-30 16:02:36.606][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/ccb008951a89970d7f0e2dfe6ae3860d.request"
biodb.TRACE[2025-08-30 16:02:36.611][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/636.xml"
biodb.DEBUG[2025-08-30 16:02:36.614][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-08-30 16:02:36.617][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-30 16:02:36.620][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-30 16:02:36.624][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:36.626][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:36.628][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:36.638][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:36.640][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:36.641][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:36.643][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:02:36.647][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:36.649][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:36.651][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:36.652][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:36.654][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:36.656][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:36.657][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:36.658][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:36.660][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:02:36.661][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:02:36.663][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:36.664][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:36.666][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:02:36.667][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:02:36.668][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:36.669][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:36.671][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:02:36.672][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:02:36.673][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:36.674][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:36.675][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:02:36.676][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:02:36.678][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:36.679][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:36.680][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:02:36.681][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:02:36.682][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:36.683][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:36.684][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:02:36.685][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:02:36.686][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:36.687][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:36.688][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:02:36.689][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:02:36.690][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:36.691][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:36.692][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:02:36.693][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:02:36.694][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:36.695][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:36.696][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:02:36.697][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:02:36.698][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:36.699][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:36.700][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:02:36.701][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:02:36.702][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:36.703][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:36.704][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:02:36.705][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:36.706][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:36.707][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:36.708][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:02:36.709][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:36.710][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:36.711][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:36.712][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:36.713][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:36.714][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:36.714][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:36.716][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:36.717][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:36.718][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:36.718][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:36.720][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:02:36.721][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:02:36.721][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:36.722][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:36.724][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:02:36.725][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:02:36.726][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:36.726][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:36.728][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:02:36.729][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:02:36.729][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:36.730][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:36.731][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:02:36.732][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:02:36.733][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:36.734][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:36.735][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:02:36.736][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:02:36.737][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:36.738][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:36.739][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:02:36.740][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:02:36.741][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:36.742][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:36.743][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:36.744][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:36.745][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:36.746][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:36.747][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:36.748][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:36.749][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:36.750][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:36.751][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:36.752][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:36.753][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:36.754][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:36.755][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:36.756][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:36.756][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:36.757][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:36.758][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:36.759][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:36.760][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:36.761][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:36.762][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:36.763][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:36.764][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:36.765][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:36.766][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:36.767][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:36.768][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:36.769][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:36.770][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:36.771][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:36.772][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:36.773][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:36.774][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:36.775][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:36.776][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:36.786][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:36.788][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:36.789][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:36.790][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:36.791][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:36.792][self$createEntryFromContent] Accession numbers: 636.
biodb.TRACE[2025-08-30 16:02:36.793][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:36.794][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:36.795][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:36.796][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:36.797][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:36.798][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:36.798][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:36.799][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:36.800][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:36.801][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:36.802][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:36.803][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:36.804][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:36.805][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:36.806][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:36.810][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:36.811][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:36.812][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:36.812][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:02:36.813][private$loadEntries] Creating entries from ids [1]: "64199".
biodb.DEBUG[2025-08-30 16:02:36.814][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-08-30 16:02:36.816][cch$loadFileContent] Trying to load 1 files from cache: [1]: "64199".
biodb.TRACE[2025-08-30 16:02:36.817][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-08-30 16:02:36.818][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-08-30 16:02:36.819][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-30 16:02:36.820][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-08-30 16:02:36.821][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-08-30 16:02:36.822][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-08-30 16:02:36.824][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:36.825][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:36.826][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:36.830][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:36.831][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:36.832][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:36.832][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:02:36.834][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=64199".
biodb.DEBUG[2025-08-30 16:02:36.836][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-08-30 16:02:36.837][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-08-30 16:02:36.838][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=64199".
biodb.TRACE[2025-08-30 16:02:37.179][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=64199).
biodb.DEBUG[2025-08-30 16:02:37.527][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-08-30 16:02:37.531][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/a31cc2b07404761abdda19d4ffeaa880.content"
biodb.TRACE[2025-08-30 16:02:37.539][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/a31cc2b07404761abdda19d4ffeaa880.request"
biodb.TRACE[2025-08-30 16:02:37.544][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/64199.xml"
biodb.DEBUG[2025-08-30 16:02:37.547][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-08-30 16:02:37.550][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-30 16:02:37.553][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-30 16:02:37.556][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:37.558][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:37.560][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:37.570][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:37.572][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:37.573][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:37.575][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:02:37.579][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:37.581][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:37.582][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:37.584][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:37.586][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:37.587][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:37.589][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:37.590][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:37.592][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:02:37.593][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:02:37.594][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:37.596][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:37.597][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:02:37.599][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:02:37.600][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:37.601][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:37.602][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:02:37.603][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:02:37.605][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:37.606][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:37.607][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:02:37.608][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:02:37.609][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:37.610][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:37.611][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:02:37.613][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:02:37.614][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:37.614][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:37.616][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:02:37.617][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:02:37.618][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:37.619][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:37.620][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:02:37.621][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:02:37.622][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:37.622][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:37.624][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:02:37.625][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:02:37.626][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:37.627][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:37.628][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:02:37.629][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:02:37.629][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:37.630][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:37.632][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:02:37.633][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:37.633][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:37.634][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:37.636][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:02:37.637][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:37.637][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:37.638][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:37.639][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:37.640][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:37.641][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:37.642][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:37.643][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:37.644][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:37.645][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:37.646][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:37.647][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:02:37.648][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:02:37.649][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:37.650][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:37.651][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:02:37.652][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:02:37.653][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:37.654][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:37.655][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:02:37.656][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:02:37.657][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:37.658][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:37.659][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:02:37.660][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:02:37.661][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:37.662][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:37.663][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:02:37.664][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:02:37.665][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:37.666][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:37.667][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:02:37.668][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:02:37.669][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:37.670][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:37.671][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:37.672][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:37.673][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:37.674][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:37.675][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:37.676][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:37.677][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:37.677][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:37.678][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:37.679][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:37.680][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:37.681][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:37.682][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:37.683][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:37.684][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:37.685][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:37.686][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:37.687][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:37.688][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:37.689][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:37.690][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:37.691][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:37.692][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:37.693][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:37.694][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:37.695][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:37.696][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:37.696][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:37.698][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:37.699][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:37.699][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:37.700][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:37.701][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:37.702][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:37.703][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:37.704][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:37.705][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:37.706][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:37.707][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:37.708][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:37.709][self$createEntryFromContent] Accession numbers: 64199.
biodb.TRACE[2025-08-30 16:02:37.710][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:37.711][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:37.712][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:37.713][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:37.714][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:37.715][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:37.716][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:37.717][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:37.717][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:37.718][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:37.719][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:37.720][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:37.721][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:37.722][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:37.723][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:37.727][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:37.728][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:37.729][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:37.730][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:02:37.731][private$loadEntries] Creating entries from ids [1]: "65648".
biodb.DEBUG[2025-08-30 16:02:37.732][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-08-30 16:02:37.733][cch$loadFileContent] Trying to load 1 files from cache: [1]: "65648".
biodb.TRACE[2025-08-30 16:02:37.735][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-08-30 16:02:37.736][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-08-30 16:02:37.737][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-30 16:02:37.738][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-08-30 16:02:37.739][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-08-30 16:02:37.739][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-08-30 16:02:37.742][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:37.743][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:37.744][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:37.748][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:37.749][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:37.749][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:37.750][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:02:37.751][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=65648".
biodb.DEBUG[2025-08-30 16:02:37.754][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-08-30 16:02:37.755][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-08-30 16:02:37.756][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=65648".
biodb.TRACE[2025-08-30 16:02:38.089][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=65648).
biodb.DEBUG[2025-08-30 16:02:38.431][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-08-30 16:02:38.436][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/4176d017d73a3b7cdd77f889aa9b1b1d.content"
biodb.TRACE[2025-08-30 16:02:38.443][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/4176d017d73a3b7cdd77f889aa9b1b1d.request"
biodb.TRACE[2025-08-30 16:02:38.449][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/65648.xml"
biodb.DEBUG[2025-08-30 16:02:38.452][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-08-30 16:02:38.455][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-30 16:02:38.457][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-30 16:02:38.461][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:38.463][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:38.465][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:38.474][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:38.476][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:38.478][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:38.479][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:02:38.483][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:38.485][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:38.487][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:38.488][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:38.490][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:38.492][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:38.493][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:38.494][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:38.496][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:02:38.497][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:02:38.499][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:38.500][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:38.501][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:02:38.503][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:02:38.504][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:38.505][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:38.507][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:02:38.508][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:02:38.509][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:38.510][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:38.511][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:02:38.512][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:02:38.514][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:38.515][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:38.516][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:02:38.517][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:02:38.518][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:38.519][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:38.520][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:02:38.521][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:02:38.522][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:38.523][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:38.524][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:02:38.525][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:02:38.526][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:38.527][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:38.528][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:02:38.529][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:02:38.530][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:38.531][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:38.532][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:02:38.533][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:02:38.534][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:38.535][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:38.536][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:02:38.537][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:38.538][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:38.539][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:38.540][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:02:38.541][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:38.542][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:38.543][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:38.544][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:38.545][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:38.546][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:38.546][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:38.548][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:38.549][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:38.549][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:38.561][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:38.562][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:02:38.563][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:02:38.564][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:38.565][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:38.566][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:02:38.567][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:02:38.568][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:38.569][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:38.570][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:02:38.571][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:02:38.572][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:38.573][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:38.574][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:02:38.575][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:02:38.576][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:38.577][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:38.578][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:02:38.579][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:02:38.580][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:38.581][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:38.582][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:02:38.583][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:02:38.584][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:38.584][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:38.586][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:38.587][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:38.587][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:38.588][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:38.589][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:38.590][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:38.591][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:38.592][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:38.593][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:38.594][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:38.595][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:38.596][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:38.597][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:38.598][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:38.599][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:38.599][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:38.600][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:38.601][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:38.602][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:38.603][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:38.604][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:38.605][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:38.606][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:38.607][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:38.608][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:38.609][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:38.610][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:38.611][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:38.612][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:38.613][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:38.614][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:38.615][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:38.615][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:38.616][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:38.617][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:38.618][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:38.619][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:38.620][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:38.621][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:38.622][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:38.623][self$createEntryFromContent] Accession numbers: 65648.
biodb.TRACE[2025-08-30 16:02:38.624][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:38.625][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:38.626][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:38.627][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:38.628][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:38.629][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:38.630][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:38.630][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:38.631][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:38.632][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:38.633][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:38.634][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:38.635][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-08-30 16:02:38.637][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:38.638][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:38.638][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:38.643][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:38.643][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:38.644][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:38.645][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:02:38.646][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:38.647][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:38.648][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:38.649][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:38.650][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:38.651][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:38.652][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:38.653][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:38.654][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:02:38.655][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:02:38.656][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:02:38.656][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:02:38.657][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:02:38.658][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:38.659][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:38.660][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:38.661][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:38.662][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:38.663][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:38.664][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:38.665][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:38.666][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:02:38.667][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:02:38.668][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:38.669][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:38.670][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:38.670][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:38.671][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-30 16:02:38.672][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:38.673][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:38.674][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:38.675][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:38.676][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:38.677][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:38.678][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:38.679][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:38.680][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:38.681][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:38.682][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:38.683][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:38.684][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [636].
biodb.DEBUG[2025-08-30 16:02:38.685][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:38.686][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:38.687][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:38.691][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:38.692][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:38.693][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:38.694][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:02:38.695][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:38.696][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:38.697][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:38.698][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:38.699][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:38.700][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:38.700][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:38.701][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:38.702][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:02:38.703][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:02:38.704][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:02:38.705][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:02:38.706][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:02:38.707][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:38.708][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:38.709][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:38.710][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:38.711][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:38.712][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:38.713][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:38.713][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:38.714][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:02:38.715][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:02:38.716][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:38.717][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:38.718][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:38.719][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:38.720][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-30 16:02:38.721][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:38.722][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:38.723][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:38.724][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:38.725][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:38.726][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:38.727][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:38.728][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:38.729][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:38.730][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:38.730][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:38.731][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:38.733][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [64199].
biodb.DEBUG[2025-08-30 16:02:38.734][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:38.735][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:38.735][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:38.740][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:38.741][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:38.741][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:38.742][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:02:38.743][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:38.744][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:38.745][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:38.746][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:38.747][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:38.748][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:38.749][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:38.750][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:38.751][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:02:38.752][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:02:38.753][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:02:38.754][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:02:38.754][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:02:38.755][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:38.756][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:38.757][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:38.758][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:38.759][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:38.760][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:38.761][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:38.762][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:38.763][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:02:38.764][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:02:38.765][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:38.766][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:38.767][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:38.768][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:38.769][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-30 16:02:38.769][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:38.771][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:38.771][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:38.772][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:38.773][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:38.774][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:38.775][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:38.776][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:38.777][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:38.778][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:38.779][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:38.780][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:38.781][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [65648].
biodb.DEBUG[2025-08-30 16:02:38.782][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-08-30 16:02:38.783][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-08-30 16:02:38.790][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2025-08-30 16:02:38.791][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2025-08-30 16:02:38.792][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:38.793][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:38.794][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2025-08-30 16:02:38.795][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2025-08-30 16:02:38.796][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:38.797][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:38.798][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2025-08-30 16:02:38.799][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2025-08-30 16:02:38.800][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:38.801][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-08-30 16:02:38.805][biodb::testThat]
biodb.INFO [2025-08-30 16:02:38.806][biodb::testThat] Running test function  test_annotateMzValues_ppm_tol  (" ppm tolerance works in annotateMzValues() ").
biodb.INFO [2025-08-30 16:02:38.807][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-08-30 16:02:38.808][biodb::testThat]
biodb.TRACE[2025-08-30 16:02:38.811][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-08-30 16:02:38.812][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-08-30 16:02:38.812][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:38.813][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:38.814][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-08-30 16:02:38.815][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-08-30 16:02:38.816][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:38.817][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:38.818][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-08-30 16:02:38.819][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-08-30 16:02:38.820][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:38.821][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:38.822][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:38.823][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:38.824][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:38.825][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:38.826][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:38.827][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:38.828][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:38.829][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:38.829][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:38.830][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:38.831][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:38.832][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:38.833][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:38.834][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:38.835][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:38.836][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:38.837][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:38.838][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:38.839][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:38.840][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:38.841][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:38.842][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:38.843][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:38.844][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:38.845][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:38.846][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:38.847][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:38.848][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:38.848][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:38.850][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:38.850][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:38.851][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:38.852][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:38.853][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:38.854][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:38.855][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:38.856][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:38.857][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:38.858][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:38.859][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:38.860][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:38.861][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:38.862][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:38.863][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:38.864][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:38.865][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:38.866][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:38.866][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:38.870][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:38.870][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:38.871][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:38.875][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:38.876][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:38.877][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:38.878][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:02:38.881][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.72*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-08-30 16:02:38.883][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-08-30 16:02:38.885][cch$loadFileContent] Trying to load 1 files from cache: [1]: "dabc9e8530050c4ceebbaec76743bcf1".
biodb.TRACE[2025-08-30 16:02:38.890][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-08-30 16:02:38.892][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/dabc9e8530050c4ceebbaec76743bcf1.content".
biodb.DEBUG[2025-08-30 16:02:38.894][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:38.894][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:38.895][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:38.899][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:38.900][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:38.901][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:38.902][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:02:38.903][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:38.904][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:38.905][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:38.906][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:38.907][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:38.908][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:38.908][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:38.909][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:38.910][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:38.911][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:38.912][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:38.913][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:38.915][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.73*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-08-30 16:02:38.917][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-08-30 16:02:38.919][cch$loadFileContent] Trying to load 1 files from cache: [1]: "41b7f9723242a79cfe14bebd91dbb5b6".
biodb.TRACE[2025-08-30 16:02:38.920][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-08-30 16:02:38.921][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/41b7f9723242a79cfe14bebd91dbb5b6.content".
biodb.DEBUG[2025-08-30 16:02:38.923][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:38.924][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:38.925][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:38.929][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:38.930][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:38.930][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:38.931][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:02:38.932][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:38.933][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:38.934][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:38.935][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:38.936][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:38.937][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:38.938][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:38.939][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:38.940][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:38.941][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:38.942][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:38.942][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:38.943][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:38.944][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:38.945][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:38.949][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:38.950][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:38.951][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:38.952][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:02:38.953][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:38.954][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:38.955][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:38.955][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:38.956][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:38.957][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:38.958][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:38.959][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:38.960][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:38.961][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:38.962][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:38.963][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:38.964][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-08-30 16:02:38.965][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:38.966][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:38.967][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:38.971][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:38.972][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:38.973][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:38.974][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:02:38.975][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:38.976][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:38.977][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:38.977][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:38.978][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:38.979][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:38.980][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:38.981][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:38.982][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:02:38.983][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:02:38.984][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:02:38.985][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:02:38.986][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:02:38.987][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:38.988][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:38.989][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:38.990][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:38.991][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:38.992][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:38.992][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:38.993][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:38.994][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:02:38.995][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:02:38.996][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:38.997][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:38.998][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:38.999][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:39.000][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-30 16:02:39.001][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:39.002][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:39.003][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:39.004][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:39.005][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:39.006][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:39.007][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:39.007][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:39.008][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:39.009][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:39.010][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:39.011][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:39.013][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [192288].
biodb.DEBUG[2025-08-30 16:02:39.014][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:39.014][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:39.015][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:39.019][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:39.020][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:39.021][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:39.022][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:02:39.023][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:39.024][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:39.025][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:39.026][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:39.027][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:39.028][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:39.029][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:39.030][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:39.031][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:02:39.032][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:02:39.032][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:02:39.033][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:02:39.034][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:02:39.035][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:39.036][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:39.037][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:39.038][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:39.039][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:39.040][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:39.041][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:39.042][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:39.043][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:02:39.044][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:02:39.045][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:39.046][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:39.047][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:39.047][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:39.048][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-30 16:02:39.049][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:39.050][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:39.051][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:39.052][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:39.053][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:39.054][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:39.055][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:39.056][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:39.057][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:39.058][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:39.059][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:39.060][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:39.061][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-08-30 16:02:39.062][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:39.063][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:39.064][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:39.068][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:39.069][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:39.070][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:39.070][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:02:39.072][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:39.073][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:39.074][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:39.074][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:39.075][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:39.076][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:39.077][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:39.078][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:39.079][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:02:39.080][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:02:39.081][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:02:39.082][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:02:39.083][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:02:39.084][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:39.085][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:39.086][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:39.087][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:39.087][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:39.088][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:39.089][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:39.090][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:39.091][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:02:39.092][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:02:39.093][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:39.094][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:39.095][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:39.096][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:39.097][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-30 16:02:39.098][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:39.099][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:39.100][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:39.101][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:39.102][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:39.103][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:39.103][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:39.104][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:39.105][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:39.106][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:39.107][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:39.108][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:39.109][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [209892].
biodb.DEBUG[2025-08-30 16:02:39.110][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-08-30 16:02:39.111][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2025-08-30 16:02:39.113][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:39.114][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:39.115][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:39.119][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:39.120][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:39.121][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:39.122][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:02:39.124][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=480.62*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-08-30 16:02:39.127][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-08-30 16:02:39.128][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b3cd8ddf08f509014f10dc9bf7c1649d".
biodb.TRACE[2025-08-30 16:02:39.129][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-08-30 16:02:39.131][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b3cd8ddf08f509014f10dc9bf7c1649d.content".
biodb.DEBUG[2025-08-30 16:02:39.133][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:39.134][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:39.135][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:39.139][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:39.140][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:39.141][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:39.141][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:02:39.143][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:39.144][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:39.144][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:39.145][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:39.146][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:39.147][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:39.148][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:39.149][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:39.150][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:39.151][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:39.152][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:39.153][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:39.154][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:39.155][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:39.156][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:39.160][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:39.161][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:39.161][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:39.162][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:02:39.163][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:39.164][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:39.165][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:39.166][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:39.167][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:39.168][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:39.169][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:39.170][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:39.171][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:39.172][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:39.173][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:39.174][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:39.175][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=480.63*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-08-30 16:02:39.178][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-08-30 16:02:39.180][cch$loadFileContent] Trying to load 1 files from cache: [1]: "831507e33c6cf42061851262412f5feb".
biodb.TRACE[2025-08-30 16:02:39.181][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-08-30 16:02:39.182][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/831507e33c6cf42061851262412f5feb.content".
biodb.DEBUG[2025-08-30 16:02:39.184][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:39.185][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:39.186][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:39.190][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:39.191][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:39.192][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:39.193][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:02:39.194][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:39.195][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:39.196][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:39.197][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:39.198][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:39.199][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:39.200][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:39.201][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:39.202][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:39.203][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:39.204][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:39.204][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:39.206][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:39.206][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:39.207][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:39.211][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:39.212][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:39.213][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:39.214][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:02:39.220][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:39.221][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:39.222][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:39.223][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:39.224][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:39.225][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:39.225][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:39.226][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:39.227][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:39.228][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:39.229][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:39.230][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:39.231][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:39.232][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:39.233][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:39.237][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:39.238][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:39.239][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:39.239][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:02:39.241][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:39.242][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:39.242][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:39.243][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:39.244][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:39.245][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:39.246][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:39.247][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:39.248][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:39.249][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:39.250][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:39.251][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:39.252][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-08-30 16:02:39.253][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:39.254][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:39.255][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:39.259][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:39.260][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:39.261][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:39.262][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:02:39.263][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:39.264][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:39.265][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:39.266][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:39.267][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:39.268][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:39.268][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:39.269][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:39.270][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:02:39.271][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:02:39.272][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:02:39.273][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:02:39.274][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:02:39.275][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:39.276][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:39.277][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:39.278][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:39.279][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:39.280][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:39.280][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:39.281][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:39.282][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:02:39.283][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:02:39.284][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:39.285][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:39.286][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:39.287][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:39.288][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-30 16:02:39.289][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:39.290][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:39.291][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:39.292][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:39.293][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:39.294][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:39.294][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:39.295][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:39.296][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:39.297][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:39.298][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:39.299][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:39.300][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4781].
biodb.DEBUG[2025-08-30 16:02:39.301][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:39.302][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:39.303][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:39.307][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:39.308][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:39.309][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:39.310][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:02:39.311][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:39.312][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:39.313][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:39.314][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:39.315][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:39.316][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:39.317][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:39.318][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:39.319][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:02:39.319][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:02:39.320][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:02:39.321][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:02:39.322][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:02:39.323][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:39.324][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:39.325][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:39.326][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:39.327][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:39.328][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:39.329][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:39.330][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:39.331][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:02:39.332][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:02:39.332][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:39.333][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:39.334][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:39.335][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:39.336][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-30 16:02:39.337][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:39.338][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:39.339][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:39.340][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:39.341][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:39.342][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:39.343][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:39.344][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:39.345][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:39.346][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:39.347][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:39.348][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:39.349][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [16587].
biodb.DEBUG[2025-08-30 16:02:39.350][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:39.351][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:39.352][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:39.356][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:39.357][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:39.358][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:39.359][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:02:39.360][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:39.361][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:39.362][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:39.363][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:39.364][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:39.365][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:39.365][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:39.366][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:39.367][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:02:39.368][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:02:39.369][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:02:39.370][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:02:39.371][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:02:39.372][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:39.373][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:39.374][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:39.375][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:39.376][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:39.377][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:39.378][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:39.378][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:39.379][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:02:39.380][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:02:39.381][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:39.382][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:39.383][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:39.384][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:39.385][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-30 16:02:39.386][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:39.387][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:39.388][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:39.389][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:39.390][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:39.391][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:39.392][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:39.393][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:39.394][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:39.395][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:39.395][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:39.396][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:39.398][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [19804].
biodb.DEBUG[2025-08-30 16:02:39.399][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-08-30 16:02:39.399][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2025-08-30 16:02:39.401][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:39.402][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:39.403][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:39.407][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:39.408][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:39.409][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:39.410][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:02:39.412][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-08-30 16:02:39.415][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-08-30 16:02:39.416][cch$loadFileContent] Trying to load 1 files from cache: [1]: "357534c211a0779cb44e196fcebae6c0".
biodb.TRACE[2025-08-30 16:02:39.418][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-08-30 16:02:39.419][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/357534c211a0779cb44e196fcebae6c0.content".
biodb.DEBUG[2025-08-30 16:02:39.421][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:39.422][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:39.423][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:39.427][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:39.428][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:39.428][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:39.429][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:02:39.430][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:39.431][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:39.432][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:39.433][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:39.434][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:39.435][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:39.436][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:39.437][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:39.438][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:39.439][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:39.440][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:39.441][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:39.442][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:39.443][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:39.444][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:39.448][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:39.448][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:39.449][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:39.450][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:02:39.451][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:39.452][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:39.453][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:39.454][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:39.455][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:39.456][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:39.457][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:39.458][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:39.459][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:39.460][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:39.461][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:39.462][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:39.463][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:39.463][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:39.464][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:39.468][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:39.469][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:39.470][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:39.471][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:02:39.472][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:39.473][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:39.474][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:39.475][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:39.476][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:39.477][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:39.478][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:39.478][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:39.479][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:39.480][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:39.481][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:39.482][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:39.484][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.4*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-08-30 16:02:39.487][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-08-30 16:02:39.488][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-08-30 16:02:39.490][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.4%2A&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.TRACE[2025-08-30 16:02:39.829][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.4%2A&searchCategory=MASS&maximumResults=0&starsCategory=ALL).
biodb.DEBUG[2025-08-30 16:02:40.337][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2025-08-30 16:02:40.342][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/dd9d19fb78fcc7453eff2e9dd7ba5702.content"
biodb.TRACE[2025-08-30 16:02:40.350][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/dd9d19fb78fcc7453eff2e9dd7ba5702.request"
biodb.DEBUG[2025-08-30 16:02:40.362][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:40.364][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:40.366][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:40.376][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:40.378][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:40.380][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:40.381][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:02:40.384][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:40.386][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:40.387][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:40.389][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:40.391][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:40.392][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:40.394][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:40.395][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:40.397][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:40.398][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:40.400][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:40.401][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:40.402][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:40.404][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:40.405][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:40.410][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:40.411][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:40.412][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:40.413][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:02:40.415][private$loadEntries] Creating entries from ids [1]: "3017".
biodb.DEBUG[2025-08-30 16:02:40.416][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-08-30 16:02:40.418][cch$loadFileContent] Trying to load 1 files from cache: [1]: "3017".
biodb.TRACE[2025-08-30 16:02:40.419][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-08-30 16:02:40.420][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-08-30 16:02:40.421][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-30 16:02:40.422][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-08-30 16:02:40.423][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-08-30 16:02:40.424][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-08-30 16:02:40.435][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:40.436][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:40.437][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:40.441][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:40.442][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:40.443][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:40.444][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:02:40.445][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=3017".
biodb.DEBUG[2025-08-30 16:02:40.447][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-08-30 16:02:40.448][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-08-30 16:02:40.449][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=3017".
biodb.TRACE[2025-08-30 16:02:40.782][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=3017).
biodb.DEBUG[2025-08-30 16:02:41.136][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-08-30 16:02:41.140][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/a0d2dadbafdef2154bb32b0db7e287ac.content"
biodb.TRACE[2025-08-30 16:02:41.147][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/a0d2dadbafdef2154bb32b0db7e287ac.request"
biodb.TRACE[2025-08-30 16:02:41.153][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/3017.xml"
biodb.DEBUG[2025-08-30 16:02:41.156][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-08-30 16:02:41.159][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-30 16:02:41.161][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-30 16:02:41.165][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:41.167][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:41.169][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:41.178][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:41.180][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:41.182][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:41.184][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:02:41.188][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:41.189][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:41.191][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:41.192][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:41.194][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:41.196][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:41.197][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:41.199][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:41.200][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:02:41.202][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:02:41.203][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:41.204][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:41.206][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:02:41.207][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:02:41.208][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:41.210][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:41.211][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:02:41.212][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:02:41.213][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:41.214][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:41.216][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:02:41.217][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:02:41.218][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:41.219][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:41.220][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:02:41.221][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:02:41.222][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:41.223][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:41.224][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:02:41.225][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:02:41.226][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:41.227][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:41.228][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:02:41.229][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:02:41.230][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:41.231][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:41.232][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:02:41.233][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:02:41.234][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:41.235][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:41.236][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:02:41.237][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:02:41.238][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:41.239][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:41.240][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:02:41.241][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:02:41.242][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:41.242][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:41.243][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:02:41.244][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:41.245][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:41.246][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:41.247][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:02:41.248][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:41.249][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:41.250][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:41.251][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:41.252][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:41.253][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:41.254][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:41.255][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:41.256][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:41.257][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:41.258][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:41.259][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:02:41.260][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:02:41.261][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:41.262][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:41.263][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:02:41.264][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:02:41.265][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:41.266][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:41.267][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:02:41.268][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:02:41.269][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:41.270][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:41.271][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:02:41.272][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:02:41.273][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:41.274][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:41.275][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:02:41.276][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:02:41.277][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:41.278][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:41.279][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:02:41.280][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:02:41.281][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:41.282][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:41.283][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:41.284][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:41.285][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:41.286][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:41.286][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:41.287][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:41.288][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:41.289][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:41.290][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:41.291][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:41.292][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:41.293][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:41.294][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:41.295][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:41.296][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:41.297][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:41.298][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:41.299][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:41.300][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:41.301][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:41.302][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:41.303][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:41.304][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:41.304][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:41.305][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:41.306][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:41.307][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:41.308][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:41.309][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:41.310][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:41.311][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:41.312][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:41.313][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:41.314][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:41.315][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:41.316][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:41.317][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:41.318][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:41.319][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:41.320][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:41.321][self$createEntryFromContent] Accession numbers: 3017.
biodb.TRACE[2025-08-30 16:02:41.322][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:41.323][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:41.324][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:41.325][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:41.325][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:41.326][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:41.327][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:41.328][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:41.329][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:41.330][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:41.331][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:41.332][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:41.333][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:41.334][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:41.335][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:41.339][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:41.340][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:41.341][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:41.342][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:02:41.343][private$loadEntries] Creating entries from ids [1]: "3510".
biodb.DEBUG[2025-08-30 16:02:41.344][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-08-30 16:02:41.345][cch$loadFileContent] Trying to load 1 files from cache: [1]: "3510".
biodb.TRACE[2025-08-30 16:02:41.346][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-08-30 16:02:41.347][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-08-30 16:02:41.348][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-30 16:02:41.349][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-08-30 16:02:41.350][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-08-30 16:02:41.351][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-08-30 16:02:41.354][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:41.355][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:41.355][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:41.360][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:41.360][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:41.361][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:41.362][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:02:41.363][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=3510".
biodb.DEBUG[2025-08-30 16:02:41.366][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-08-30 16:02:41.367][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-08-30 16:02:41.368][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=3510".
biodb.TRACE[2025-08-30 16:02:41.728][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=3510).
biodb.DEBUG[2025-08-30 16:02:42.072][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-08-30 16:02:42.076][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/58362fa70b44eecb6a87afbf9b6dfd8b.content"
biodb.TRACE[2025-08-30 16:02:42.084][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/58362fa70b44eecb6a87afbf9b6dfd8b.request"
biodb.TRACE[2025-08-30 16:02:42.089][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/3510.xml"
biodb.DEBUG[2025-08-30 16:02:42.092][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-08-30 16:02:42.095][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-30 16:02:42.097][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-30 16:02:42.101][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:42.103][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:42.105][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:42.114][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:42.116][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:42.118][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:42.120][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:02:42.124][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:42.126][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:42.127][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:42.129][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:42.131][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:42.132][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:42.134][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:42.135][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:42.137][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:02:42.138][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:02:42.139][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:42.141][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:42.142][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:02:42.144][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:02:42.145][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:42.146][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:42.147][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:02:42.148][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:02:42.150][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:42.151][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:42.152][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:02:42.153][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:02:42.154][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:42.155][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:42.157][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:02:42.158][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:02:42.159][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:42.160][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:42.161][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:02:42.162][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:02:42.163][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:42.164][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:42.165][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:02:42.166][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:02:42.167][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:42.168][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:42.169][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:02:42.170][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:02:42.171][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:42.172][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:42.173][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:02:42.174][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:02:42.175][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:42.176][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:42.177][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:02:42.178][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:02:42.179][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:42.180][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:42.181][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:02:42.182][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:42.183][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:42.183][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:42.185][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:02:42.186][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:42.186][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:42.187][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:42.188][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:42.189][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:42.190][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:42.191][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:42.192][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:42.193][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:42.194][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:42.195][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:42.196][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:02:42.197][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:02:42.198][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:42.199][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:42.200][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:02:42.201][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:02:42.202][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:42.203][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:42.204][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:02:42.205][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:02:42.206][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:42.207][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:42.208][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:02:42.209][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:02:42.210][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:42.211][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:42.212][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:02:42.213][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:02:42.214][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:42.215][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:42.216][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:02:42.217][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:02:42.218][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:42.219][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:42.220][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:42.232][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:42.233][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:42.234][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:42.235][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:42.236][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:42.237][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:42.238][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:42.239][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:42.240][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:42.241][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:42.241][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:42.242][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:42.243][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:42.244][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:42.245][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:42.246][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:42.247][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:42.248][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:42.249][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:42.250][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:42.251][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:42.252][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:42.253][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:42.254][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:42.255][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:42.255][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:42.256][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:42.257][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:42.258][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:42.259][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:42.260][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:42.261][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:42.262][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:42.263][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:42.264][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:42.265][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:42.266][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:42.267][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:42.268][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:42.269][self$createEntryFromContent] Accession numbers: 3510.
biodb.TRACE[2025-08-30 16:02:42.270][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:42.271][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:42.272][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:42.272][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:42.273][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:42.274][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:42.275][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:42.276][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:42.277][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:42.278][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:42.279][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:42.280][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:42.281][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:42.282][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:42.282][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:42.287][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:42.288][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:42.288][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:42.289][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:02:42.290][private$loadEntries] Creating entries from ids [1]: "7554".
biodb.DEBUG[2025-08-30 16:02:42.291][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-08-30 16:02:42.293][cch$loadFileContent] Trying to load 1 files from cache: [1]: "7554".
biodb.TRACE[2025-08-30 16:02:42.294][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-08-30 16:02:42.295][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-08-30 16:02:42.296][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-30 16:02:42.297][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-08-30 16:02:42.298][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-08-30 16:02:42.299][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-08-30 16:02:42.301][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:42.302][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:42.303][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:42.307][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:42.308][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:42.309][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:42.310][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:02:42.311][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7554".
biodb.DEBUG[2025-08-30 16:02:42.313][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-08-30 16:02:42.314][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-08-30 16:02:42.316][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7554".
biodb.TRACE[2025-08-30 16:02:42.670][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7554).
biodb.DEBUG[2025-08-30 16:02:43.019][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-08-30 16:02:43.024][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/66bd6c2472b2485e58ad424b4505cbea.content"
biodb.TRACE[2025-08-30 16:02:43.031][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/66bd6c2472b2485e58ad424b4505cbea.request"
biodb.TRACE[2025-08-30 16:02:43.036][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/7554.xml"
biodb.DEBUG[2025-08-30 16:02:43.040][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-08-30 16:02:43.042][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-30 16:02:43.045][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-30 16:02:43.049][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:43.051][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:43.053][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:43.062][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:43.064][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:43.066][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:43.068][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:02:43.071][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:43.073][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:43.075][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:43.076][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:43.078][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:43.080][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:43.081][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:43.083][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:43.084][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:02:43.086][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:02:43.087][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:43.088][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:43.090][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:02:43.091][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:02:43.092][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:43.094][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:43.095][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:02:43.096][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:02:43.097][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:43.099][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:43.100][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:02:43.101][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:02:43.102][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:43.103][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:43.104][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:02:43.106][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:02:43.107][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:43.108][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:43.109][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:02:43.110][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:02:43.111][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:43.112][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:43.113][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:02:43.114][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:02:43.115][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:43.116][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:43.117][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:02:43.118][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:02:43.119][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:43.120][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:43.121][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:02:43.122][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:02:43.123][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:43.124][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:43.125][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:02:43.126][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:02:43.127][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:43.128][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:43.129][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:02:43.130][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:43.131][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:43.132][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:43.133][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:02:43.134][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:43.135][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:43.136][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:43.137][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:43.138][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:43.139][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:43.140][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:43.141][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:43.142][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:43.143][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:43.144][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:43.145][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:02:43.146][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:02:43.146][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:43.147][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:43.149][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:02:43.150][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:02:43.151][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:43.152][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:43.153][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:02:43.154][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:02:43.154][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:43.155][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:43.157][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:02:43.158][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:02:43.158][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:43.159][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:43.160][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:02:43.161][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:02:43.162][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:43.163][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:43.164][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:02:43.165][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:02:43.166][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:43.167][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:43.168][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:43.169][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:43.170][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:43.171][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:43.172][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:43.173][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:43.174][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:43.175][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:43.176][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:43.177][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:43.178][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:43.179][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:43.180][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:43.181][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:43.181][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:43.182][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:43.183][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:43.184][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:43.185][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:43.186][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:43.187][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:43.188][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:43.189][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:43.190][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:43.191][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:43.192][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:43.193][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:43.194][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:43.195][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:43.196][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:43.197][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:43.198][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:43.199][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:43.200][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:43.200][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:43.201][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:43.202][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:43.203][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:43.204][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:43.205][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:43.206][self$createEntryFromContent] Accession numbers: 7554.
biodb.TRACE[2025-08-30 16:02:43.207][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:43.208][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:43.209][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:43.210][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:43.211][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:43.212][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:43.213][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:43.214][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:43.215][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:43.216][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:43.217][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:43.217][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:43.219][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-08-30 16:02:43.220][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:43.221][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:43.222][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:43.226][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:43.227][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:43.228][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:43.229][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:02:43.230][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:43.231][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:43.232][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:43.233][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:43.234][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:43.235][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:43.236][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:43.237][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:43.238][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:02:43.239][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:02:43.240][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:02:43.241][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:02:43.241][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:02:43.242][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:43.243][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:43.244][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:43.245][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:43.246][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:43.247][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:43.248][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:43.249][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:43.250][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:02:43.251][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:02:43.252][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:43.253][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:43.254][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:43.255][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:43.256][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-30 16:02:43.257][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:43.258][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:43.258][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:43.259][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:43.260][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:43.261][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:43.262][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:43.263][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:43.264][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:43.265][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:43.266][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:43.267][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:43.268][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [7799].
biodb.DEBUG[2025-08-30 16:02:43.269][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:43.270][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:43.271][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:43.275][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:43.276][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:43.277][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:43.278][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:02:43.279][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:43.280][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:43.281][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:43.282][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:43.282][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:43.283][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:43.284][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:43.285][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:43.286][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:02:43.287][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:02:43.288][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:02:43.289][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:02:43.290][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:02:43.291][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:43.292][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:43.293][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:43.294][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:43.295][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:43.296][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:43.305][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:43.306][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:43.307][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:02:43.308][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:02:43.308][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:43.309][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:43.310][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:43.311][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:43.312][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-30 16:02:43.313][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:43.314][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:43.315][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:43.316][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:43.317][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:43.318][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:43.319][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:43.320][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:43.321][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:43.322][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:43.323][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:43.323][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:43.325][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [3017].
biodb.DEBUG[2025-08-30 16:02:43.326][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:43.327][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:43.327][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:43.332][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:43.332][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:43.333][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:43.334][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:02:43.335][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:43.336][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:43.337][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:43.338][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:43.339][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:43.340][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:43.341][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:43.342][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:43.343][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:02:43.344][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:02:43.345][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:02:43.345][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:02:43.346][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:02:43.347][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:43.348][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:43.349][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:43.350][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:43.351][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:43.352][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:43.353][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:43.354][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:43.355][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:02:43.356][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:02:43.357][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:43.358][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:43.358][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:43.359][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:43.360][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-30 16:02:43.361][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:43.362][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:43.363][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:43.364][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:43.365][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:43.366][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:43.367][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:43.368][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:43.369][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:43.370][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:43.371][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:43.371][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:43.373][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [7554].
biodb.DEBUG[2025-08-30 16:02:43.374][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-08-30 16:02:43.375][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-08-30 16:02:43.382][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:43.383][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:43.384][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:43.385][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:43.386][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:43.387][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:43.388][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:43.389][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:43.390][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:43.391][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:43.391][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:43.392][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:43.393][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:43.394][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:43.395][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:43.396][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:43.397][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:43.398][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:43.399][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:43.400][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:43.401][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:43.402][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:43.403][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:43.404][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:43.405][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:43.406][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:43.407][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:43.408][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:43.409][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:43.410][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:43.411][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:43.411][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:43.412][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:43.413][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:43.414][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:43.415][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:43.416][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:43.417][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:43.418][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:43.419][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:43.420][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:43.421][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:43.422][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:43.423][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:43.424][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:43.425][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:43.426][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:43.427][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:43.430][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:43.431][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:43.431][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:43.436][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:43.437][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:43.437][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:43.438][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:02:43.441][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.38*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-08-30 16:02:43.444][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-08-30 16:02:43.445][cch$loadFileContent] Trying to load 1 files from cache: [1]: "49f51d93ac229648aa454636918ce386".
biodb.TRACE[2025-08-30 16:02:43.446][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-08-30 16:02:43.447][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/49f51d93ac229648aa454636918ce386.content".
biodb.DEBUG[2025-08-30 16:02:43.450][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-08-30 16:02:43.453][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-08-30 16:02:43.454][cch$loadFileContent] Trying to load 1 files from cache: [1]: "121ea95906eb67bed88948c362686e4f".
biodb.TRACE[2025-08-30 16:02:43.455][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-08-30 16:02:43.457][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/121ea95906eb67bed88948c362686e4f.content".
biodb.DEBUG[2025-08-30 16:02:43.459][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:43.460][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:43.461][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:43.465][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:43.466][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:43.467][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:43.467][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:02:43.468][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:43.469][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:43.470][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:43.471][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:43.472][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:43.473][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:43.474][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:43.475][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:43.476][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:43.477][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:43.478][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:43.479][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:43.480][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:43.481][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:43.482][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:43.486][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:43.487][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:43.487][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:43.488][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:02:43.489][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:43.490][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:43.491][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:43.492][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:43.493][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:43.494][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:43.495][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:43.496][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:43.497][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:43.498][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:43.499][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:43.500][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:43.501][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:43.502][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:43.502][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:43.506][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:43.507][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:43.508][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:43.509][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:02:43.510][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:43.511][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:43.512][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:43.513][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:43.514][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:43.515][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:43.516][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:43.517][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:43.518][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:43.519][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:43.520][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:43.520][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:43.522][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-08-30 16:02:43.523][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:43.524][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:43.525][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:43.529][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:43.530][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:43.530][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:43.531][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:02:43.532][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:43.533][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:43.534][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:43.535][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:43.536][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:43.537][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:43.538][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:43.539][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:43.540][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:02:43.541][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:02:43.542][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:02:43.543][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:02:43.544][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:02:43.545][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:43.546][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:43.546][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:43.547][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:43.548][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:43.549][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:43.550][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:43.551][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:43.552][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:02:43.553][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:02:43.554][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:43.555][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:43.556][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:43.557][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:43.558][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-30 16:02:43.559][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:43.560][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:43.561][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:43.562][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:43.563][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:43.564][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:43.564][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:43.565][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:43.566][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:43.567][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:43.568][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:43.569][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:43.570][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4648].
biodb.DEBUG[2025-08-30 16:02:43.571][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:43.572][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:43.573][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:43.577][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:43.578][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:43.579][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:43.580][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:02:43.581][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:43.582][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:43.583][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:43.584][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:43.585][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:43.586][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:43.587][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:43.587][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:43.588][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:02:43.589][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:02:43.590][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:02:43.591][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:02:43.592][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:02:43.593][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:43.594][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:43.595][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:43.596][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:43.597][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:43.598][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:43.599][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:43.600][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:43.600][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:02:43.601][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:02:43.602][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:43.603][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:43.604][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:43.605][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:43.606][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-30 16:02:43.607][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:43.608][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:43.609][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:43.610][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:43.611][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:43.612][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:43.613][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:43.614][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:43.615][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:43.616][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:43.616][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:43.617][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:43.619][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-08-30 16:02:43.620][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:43.621][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:43.621][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:43.625][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:43.626][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:43.627][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:43.633][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:02:43.634][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:43.635][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:43.636][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:43.637][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:43.638][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:43.639][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:43.640][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:43.640][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:43.641][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:02:43.642][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:02:43.643][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:02:43.644][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:02:43.645][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:02:43.646][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:43.647][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:43.648][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:43.649][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:43.650][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:43.651][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:43.651][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:43.652][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:43.653][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:02:43.654][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:02:43.655][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:43.656][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:43.657][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:43.658][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:43.659][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-30 16:02:43.660][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:43.661][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:43.662][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:43.663][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:43.663][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:43.664][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:43.665][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:43.666][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:43.667][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:43.668][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:43.669][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:43.670][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:43.671][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [62447].
biodb.DEBUG[2025-08-30 16:02:43.672][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-08-30 16:02:43.673][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2025-08-30 16:02:43.675][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:43.676][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:43.677][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:43.681][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:43.682][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:43.682][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:43.683][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:02:43.686][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=480.3*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-08-30 16:02:43.689][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-08-30 16:02:43.690][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-08-30 16:02:43.691][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=480.3%2A&searchCategory=MONOISOTOPIC%20MASS&maximumResults=0&starsCategory=ALL".
biodb.TRACE[2025-08-30 16:02:44.026][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=480.3%2A&searchCategory=MONOISOTOPIC%20MASS&maximumResults=0&starsCategory=ALL).
biodb.DEBUG[2025-08-30 16:02:44.374][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2025-08-30 16:02:44.379][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/f88afce5e7bcb0842d474b04c0bef37a.content"
biodb.TRACE[2025-08-30 16:02:44.387][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/f88afce5e7bcb0842d474b04c0bef37a.request"
biodb.DEBUG[2025-08-30 16:02:44.394][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:44.396][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:44.398][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:44.408][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:44.410][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:44.412][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:44.414][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:02:44.416][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:44.419][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:44.420][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:44.422][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:44.424][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:44.426][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:44.428][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:44.429][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:44.431][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:44.432][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:44.434][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:44.435][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:44.437][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:44.438][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:44.439][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:44.445][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:44.446][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:44.447][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:44.448][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:02:44.450][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:44.451][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:44.452][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:44.453][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:44.454][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:44.456][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:44.457][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:44.458][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:44.459][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:44.460][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:44.461][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:44.462][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:44.463][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:44.464][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:44.465][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:44.469][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:44.470][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:44.471][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:44.472][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:02:44.473][private$loadEntries] Creating entries from ids [1]: "27495".
biodb.DEBUG[2025-08-30 16:02:44.474][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-08-30 16:02:44.475][cch$loadFileContent] Trying to load 1 files from cache: [1]: "27495".
biodb.TRACE[2025-08-30 16:02:44.476][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-08-30 16:02:44.477][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-08-30 16:02:44.479][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-30 16:02:44.480][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-08-30 16:02:44.481][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-08-30 16:02:44.481][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-08-30 16:02:44.484][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:44.485][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:44.486][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:44.490][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:44.491][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:44.492][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:44.493][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:02:44.494][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=27495".
biodb.DEBUG[2025-08-30 16:02:44.496][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-08-30 16:02:44.497][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-08-30 16:02:44.498][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=27495".
biodb.TRACE[2025-08-30 16:02:44.844][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=27495).
biodb.DEBUG[2025-08-30 16:02:45.188][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-08-30 16:02:45.193][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/edda5d46cbbeda6cad9b4593b6925e01.content"
biodb.TRACE[2025-08-30 16:02:45.200][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/edda5d46cbbeda6cad9b4593b6925e01.request"
biodb.TRACE[2025-08-30 16:02:45.205][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/27495.xml"
biodb.DEBUG[2025-08-30 16:02:45.208][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-08-30 16:02:45.211][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-30 16:02:45.214][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-30 16:02:45.217][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:45.219][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:45.221][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:45.231][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:45.233][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:45.235][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:45.236][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:02:45.240][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:45.242][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:45.244][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:45.245][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:45.247][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:45.249][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:45.250][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:45.251][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:45.253][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:02:45.254][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:02:45.256][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:45.257][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:45.258][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:02:45.260][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:02:45.261][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:45.262][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:45.263][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:02:45.265][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:02:45.266][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:45.267][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:45.268][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:02:45.270][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:02:45.271][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:45.272][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:45.273][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:02:45.274][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:02:45.275][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:45.276][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:45.277][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:02:45.278][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:02:45.279][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:45.280][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:45.281][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:02:45.282][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:02:45.283][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:45.284][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:45.285][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:02:45.286][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:02:45.287][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:45.288][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:45.289][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:02:45.290][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:02:45.291][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:45.292][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:45.293][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:02:45.294][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:02:45.295][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:45.295][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:45.297][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:02:45.298][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:45.298][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:45.299][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:45.300][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:02:45.301][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:45.302][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:45.303][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:45.304][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:45.305][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:45.306][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:45.307][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:45.308][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:45.309][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:45.310][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:45.311][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:45.312][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:02:45.313][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:02:45.314][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:45.315][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:45.316][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:02:45.317][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:02:45.318][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:45.319][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:45.320][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:02:45.321][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:02:45.322][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:45.323][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:45.324][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:02:45.325][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:02:45.326][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:45.327][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:45.328][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:02:45.329][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:02:45.330][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:45.331][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:45.332][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:02:45.333][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:02:45.334][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:45.335][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:45.336][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:45.337][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:45.337][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:45.338][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:45.339][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:45.340][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:45.341][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:45.342][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:45.343][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:45.344][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:45.345][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:45.346][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:45.347][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:45.348][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:45.349][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:45.350][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:45.351][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:45.352][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:45.353][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:45.353][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:45.354][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:45.355][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:45.356][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:45.357][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:45.358][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:45.359][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:45.360][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:45.361][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:45.362][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:45.363][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:45.364][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:45.365][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:45.366][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:45.367][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:45.368][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:45.369][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:45.370][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:45.371][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:45.372][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:45.372][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:45.373][self$createEntryFromContent] Accession numbers: 27495.
biodb.TRACE[2025-08-30 16:02:45.374][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:45.375][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:45.376][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:45.377][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:45.378][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:45.379][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:45.380][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:45.381][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:45.382][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:45.383][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:45.384][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:45.385][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:45.386][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-08-30 16:02:45.387][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:45.388][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:45.389][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:45.393][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:45.394][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:45.395][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:45.396][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:02:45.397][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:45.398][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:45.403][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:45.411][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:45.412][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:45.413][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:45.414][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:45.415][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:45.415][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:02:45.416][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:02:45.417][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:02:45.418][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:02:45.419][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:02:45.420][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:45.421][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:45.422][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:45.423][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:45.424][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:45.425][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:45.426][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:45.426][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:45.427][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:02:45.428][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:02:45.429][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:45.430][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:45.431][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:45.432][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:45.433][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-30 16:02:45.434][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:45.435][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:45.436][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:45.437][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:45.438][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:45.439][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:45.439][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:45.440][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:45.441][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:45.442][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:45.443][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:45.444][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:45.445][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [16587].
biodb.DEBUG[2025-08-30 16:02:45.446][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:45.447][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:45.448][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:45.452][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:45.453][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:45.454][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:45.454][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:02:45.456][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:45.457][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:45.457][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:45.458][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:45.459][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:45.460][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:45.461][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:45.462][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:45.463][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:02:45.464][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:02:45.465][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:02:45.466][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:02:45.467][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:02:45.467][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:45.468][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:45.469][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:45.470][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:45.471][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:45.472][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:45.473][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:45.474][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:45.475][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:02:45.476][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:02:45.477][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:45.478][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:45.479][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:45.479][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:45.480][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-30 16:02:45.481][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:45.482][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:45.483][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:45.484][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:45.485][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:45.486][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:45.487][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:45.488][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:45.489][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:45.490][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:45.491][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:45.492][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:45.493][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [19804].
biodb.DEBUG[2025-08-30 16:02:45.494][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:45.495][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:45.496][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:45.500][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:45.500][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:45.501][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:45.502][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:02:45.503][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:45.504][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:45.505][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:45.506][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:45.507][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:45.508][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:45.509][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:45.510][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:45.511][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:02:45.512][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:02:45.513][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:02:45.514][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:02:45.514][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:02:45.515][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:45.516][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:45.517][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:45.518][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:45.519][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:45.520][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:45.521][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:45.522][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:45.523][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:02:45.524][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:02:45.525][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:45.526][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:45.527][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:45.528][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:45.529][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-30 16:02:45.530][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:45.531][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:45.531][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:45.532][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:45.533][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:45.534][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:45.535][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:45.536][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:45.537][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:45.538][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:45.539][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:45.540][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:45.541][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [27495].
biodb.DEBUG[2025-08-30 16:02:45.542][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-08-30 16:02:45.543][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2025-08-30 16:02:45.545][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:45.546][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:45.547][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:45.551][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:45.552][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:45.553][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:45.553][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:02:45.556][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.17*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-08-30 16:02:45.559][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-08-30 16:02:45.560][cch$loadFileContent] Trying to load 1 files from cache: [1]: "acfa4b558978abf12409c2b56e678d03".
biodb.TRACE[2025-08-30 16:02:45.561][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-08-30 16:02:45.562][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/acfa4b558978abf12409c2b56e678d03.content".
biodb.DEBUG[2025-08-30 16:02:45.565][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:45.566][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:45.567][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:45.571][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:45.572][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:45.572][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:45.573][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:02:45.574][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:45.575][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:45.576][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:45.577][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:45.578][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:45.579][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:45.580][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:45.581][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:45.582][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:45.583][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:45.584][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:45.585][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:45.586][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:45.587][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:45.587][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:45.591][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:45.592][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:45.593][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:45.594][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:02:45.595][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:45.596][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:45.597][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:45.598][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:45.599][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:45.600][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:45.601][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:45.602][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:45.603][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:45.604][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:45.605][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:45.605][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:45.606][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:45.607][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:45.608][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:45.612][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:45.613][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:45.614][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:45.615][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:02:45.616][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:45.617][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:45.618][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:45.619][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:45.620][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:45.621][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:45.622][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:45.623][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:45.623][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:45.624][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:45.625][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:45.626][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:45.627][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:45.628][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:45.629][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:45.633][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:45.634][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:45.635][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:45.636][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:02:45.637][private$loadEntries] Creating entries from ids [1]: "65675".
biodb.DEBUG[2025-08-30 16:02:45.638][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-08-30 16:02:45.639][cch$loadFileContent] Trying to load 1 files from cache: [1]: "65675".
biodb.TRACE[2025-08-30 16:02:45.640][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-08-30 16:02:45.641][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-08-30 16:02:45.642][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-30 16:02:45.643][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-08-30 16:02:45.644][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-08-30 16:02:45.645][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-08-30 16:02:45.648][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:45.649][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:45.649][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:45.654][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:45.654][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:45.655][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:45.656][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:02:45.657][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=65675".
biodb.DEBUG[2025-08-30 16:02:45.660][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-08-30 16:02:45.661][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-08-30 16:02:45.662][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=65675".
biodb.TRACE[2025-08-30 16:02:45.993][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=65675).
biodb.DEBUG[2025-08-30 16:02:46.330][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-08-30 16:02:46.332][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/5e9eb5601826c5f1539c216fc81b6e57.content"
biodb.TRACE[2025-08-30 16:02:46.336][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/5e9eb5601826c5f1539c216fc81b6e57.request"
biodb.TRACE[2025-08-30 16:02:46.339][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/65675.xml"
biodb.DEBUG[2025-08-30 16:02:46.340][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-08-30 16:02:46.342][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-30 16:02:46.343][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-30 16:02:46.345][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:46.346][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:46.347][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:46.352][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:46.353][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:46.354][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:46.355][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:02:46.357][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:46.358][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:46.359][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:46.360][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:46.362][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:46.363][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:46.364][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:46.365][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:46.367][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:02:46.368][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:02:46.369][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:46.370][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:46.371][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:02:46.373][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:02:46.374][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:46.375][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:46.376][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:02:46.377][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:02:46.378][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:46.379][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:46.381][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:02:46.382][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:02:46.383][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:46.384][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:46.385][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:02:46.386][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:02:46.387][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:46.388][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:46.389][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:02:46.390][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:02:46.391][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:46.392][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:46.393][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:02:46.394][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:02:46.395][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:46.396][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:46.397][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:02:46.398][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:02:46.399][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:46.400][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:46.401][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:02:46.402][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:02:46.402][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:46.403][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:46.405][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:02:46.414][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:46.415][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:46.416][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:46.417][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:02:46.418][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:46.419][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:46.420][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:46.421][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:46.422][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:46.423][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:46.423][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:46.424][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:46.425][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:46.426][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:46.427][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:46.428][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:02:46.429][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:02:46.430][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:46.431][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:46.432][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:02:46.433][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:02:46.434][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:46.435][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:46.436][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:02:46.437][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:02:46.438][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:46.439][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:46.440][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:02:46.441][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:02:46.442][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:46.443][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:46.444][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:02:46.445][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:02:46.446][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:46.446][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:46.448][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:02:46.449][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:02:46.449][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:46.450][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:46.451][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:46.452][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:46.453][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:46.454][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:46.455][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:46.456][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:46.457][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:46.458][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:46.459][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:46.460][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:46.461][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:46.462][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:46.463][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:46.464][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:46.464][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:46.465][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:46.466][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:46.467][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:46.468][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:46.469][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:46.470][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:46.471][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:46.472][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:46.473][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:46.474][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:46.475][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:46.476][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:46.476][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:46.478][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:46.479][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:46.479][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:46.480][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:46.481][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:46.482][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:46.483][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:46.484][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:46.485][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:46.486][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:46.487][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:46.488][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:46.489][self$createEntryFromContent] Accession numbers: 65675.
biodb.TRACE[2025-08-30 16:02:46.490][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:46.491][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:46.492][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:46.493][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:46.494][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:46.495][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:46.495][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:46.496][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:46.497][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:46.498][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:46.499][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:46.500][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:46.501][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:46.502][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:46.503][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:46.507][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:46.508][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:46.509][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:46.510][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:02:46.511][private$loadEntries] Creating entries from ids [1]: "66318".
biodb.DEBUG[2025-08-30 16:02:46.512][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-08-30 16:02:46.513][cch$loadFileContent] Trying to load 1 files from cache: [1]: "66318".
biodb.TRACE[2025-08-30 16:02:46.514][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-08-30 16:02:46.515][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-08-30 16:02:46.516][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-30 16:02:46.517][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-08-30 16:02:46.518][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-08-30 16:02:46.519][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-08-30 16:02:46.522][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:46.523][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:46.523][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:46.527][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:46.528][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:46.529][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:46.530][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:02:46.531][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=66318".
biodb.DEBUG[2025-08-30 16:02:46.534][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-08-30 16:02:46.535][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-08-30 16:02:46.536][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=66318".
biodb.TRACE[2025-08-30 16:02:46.868][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=66318).
biodb.DEBUG[2025-08-30 16:02:47.220][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-08-30 16:02:47.223][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/f7af403e0af2ad309d5e7b7572ad9eab.content"
biodb.TRACE[2025-08-30 16:02:47.227][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/f7af403e0af2ad309d5e7b7572ad9eab.request"
biodb.TRACE[2025-08-30 16:02:47.229][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/66318.xml"
biodb.DEBUG[2025-08-30 16:02:47.231][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-08-30 16:02:47.232][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-30 16:02:47.234][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-30 16:02:47.235][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:47.236][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:47.238][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:47.243][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:47.244][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:47.245][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:47.246][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:02:47.248][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:47.249][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:47.251][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:47.252][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:47.253][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:47.254][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:47.255][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:47.256][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:47.258][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:02:47.259][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:02:47.260][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:47.261][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:47.263][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:02:47.264][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:02:47.265][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:47.266][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:47.267][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:02:47.268][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:02:47.270][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:47.271][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:47.272][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:02:47.273][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:02:47.274][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:47.275][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:47.276][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:02:47.277][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:02:47.278][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:47.279][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:47.280][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:02:47.281][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:02:47.282][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:47.283][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:47.284][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:02:47.285][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:02:47.286][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:47.287][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:47.288][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:02:47.289][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:02:47.290][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:47.291][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:47.292][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:02:47.293][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:02:47.294][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:47.295][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:47.296][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:02:47.297][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:47.298][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:47.299][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:47.300][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:02:47.301][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:47.302][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:47.303][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:47.304][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:47.305][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:47.306][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:47.307][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:47.308][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:47.309][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:47.310][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:47.311][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:47.312][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:02:47.313][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:02:47.314][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:47.315][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:47.316][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:02:47.317][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:02:47.318][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:47.319][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:47.320][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:02:47.321][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:02:47.322][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:47.323][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:47.324][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:02:47.325][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:02:47.326][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:47.327][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:47.328][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:02:47.329][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:02:47.330][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:47.331][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:47.332][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:02:47.333][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:02:47.334][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:47.335][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:47.336][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:47.337][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:47.338][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:47.339][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:47.340][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:47.341][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:47.342][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:47.343][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:47.344][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:47.345][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:47.346][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:47.347][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:47.348][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:47.349][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:47.350][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:47.351][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:47.352][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:47.353][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:47.353][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:47.354][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:47.355][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:47.356][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:47.357][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:47.358][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:47.359][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:47.360][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:47.361][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:47.362][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:47.363][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:47.364][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:47.365][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:47.366][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:47.367][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:47.368][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:47.369][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:47.370][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:47.371][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:47.372][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:47.373][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:47.374][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:47.375][self$createEntryFromContent] Accession numbers: 66318.
biodb.TRACE[2025-08-30 16:02:47.376][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:47.377][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:47.378][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:47.379][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:47.380][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:47.381][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:47.381][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:47.382][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:47.383][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:47.384][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:47.385][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:47.386][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:47.387][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:47.388][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:47.389][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:47.393][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:47.394][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:47.395][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:47.396][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:02:47.397][private$loadEntries] Creating entries from ids [1]: "67547".
biodb.DEBUG[2025-08-30 16:02:47.398][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-08-30 16:02:47.400][cch$loadFileContent] Trying to load 1 files from cache: [1]: "67547".
biodb.TRACE[2025-08-30 16:02:47.401][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-08-30 16:02:47.402][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-08-30 16:02:47.403][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-30 16:02:47.404][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-08-30 16:02:47.405][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-08-30 16:02:47.406][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-08-30 16:02:47.408][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:47.409][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:47.410][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:47.414][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:47.415][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:47.416][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:47.417][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:02:47.418][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=67547".
biodb.DEBUG[2025-08-30 16:02:47.421][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-08-30 16:02:47.422][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-08-30 16:02:47.423][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=67547".
biodb.TRACE[2025-08-30 16:02:47.756][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=67547).
biodb.DEBUG[2025-08-30 16:02:48.169][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-08-30 16:02:48.174][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/5dcb6d289b29a3e5a91ef3f664ac8354.content"
biodb.TRACE[2025-08-30 16:02:48.201][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/5dcb6d289b29a3e5a91ef3f664ac8354.request"
biodb.TRACE[2025-08-30 16:02:48.207][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/67547.xml"
biodb.DEBUG[2025-08-30 16:02:48.210][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-08-30 16:02:48.212][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-30 16:02:48.215][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-30 16:02:48.218][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:48.219][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:48.221][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:48.228][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:48.229][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:48.230][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:48.232][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:02:48.235][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:48.236][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:48.237][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:48.239][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:48.240][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:48.242][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:48.243][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:48.244][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:48.245][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:02:48.247][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:02:48.248][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:48.249][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:48.250][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:02:48.251][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:02:48.252][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:48.253][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:48.254][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:02:48.256][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:02:48.257][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:48.257][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:48.259][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:02:48.260][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:02:48.261][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:48.262][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:48.263][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:02:48.264][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:02:48.265][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:48.266][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:48.267][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:02:48.268][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:02:48.269][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:48.269][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:48.270][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:02:48.271][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:02:48.272][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:48.273][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:48.274][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:02:48.275][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:02:48.276][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:48.277][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:48.278][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:02:48.279][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:02:48.280][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:48.281][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:48.282][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:02:48.283][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:02:48.284][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:48.285][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:48.286][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:02:48.287][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:48.288][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:48.289][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:48.290][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:02:48.291][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:48.292][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:48.293][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:48.294][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:48.295][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:48.296][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:48.296][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:48.298][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:48.299][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:48.300][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:48.300][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:48.301][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:02:48.302][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:02:48.303][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:48.304][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:48.306][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:02:48.307][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:02:48.307][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:48.308][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:48.309][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:02:48.310][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:02:48.311][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:48.312][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:48.313][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:02:48.314][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:02:48.315][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:48.316][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:48.317][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:02:48.318][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:02:48.319][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:48.320][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:48.321][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:02:48.322][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:02:48.323][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:48.324][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:48.325][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:48.326][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:48.327][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:48.328][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:48.329][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:48.330][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:48.331][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:48.332][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:48.333][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:48.334][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:48.334][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:48.335][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:48.336][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:48.337][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:48.338][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:48.339][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:48.340][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:48.341][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:48.342][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:48.343][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:48.344][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:48.345][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:48.346][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:48.347][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:48.348][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:48.349][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:48.350][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:48.351][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:48.352][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:48.353][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:48.354][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:48.355][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:48.356][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:48.357][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:48.357][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:48.358][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:48.359][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:48.360][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:48.361][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:48.362][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:48.363][self$createEntryFromContent] Accession numbers: 67547.
biodb.TRACE[2025-08-30 16:02:48.364][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:48.365][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:48.366][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:48.367][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:48.368][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:48.369][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:48.370][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:48.371][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:48.372][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:48.373][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:48.374][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:48.375][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:48.375][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:48.376][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:48.377][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:48.381][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:48.382][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:48.383][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:48.384][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:02:48.385][private$loadEntries] Creating entries from ids [1]: "69550".
biodb.DEBUG[2025-08-30 16:02:48.386][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-08-30 16:02:48.387][cch$loadFileContent] Trying to load 1 files from cache: [1]: "69550".
biodb.TRACE[2025-08-30 16:02:48.389][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-08-30 16:02:48.390][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-08-30 16:02:48.391][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-30 16:02:48.392][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-08-30 16:02:48.393][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-08-30 16:02:48.394][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-08-30 16:02:48.396][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:48.397][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:48.398][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:48.402][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:48.403][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:48.404][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:48.404][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:02:48.406][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=69550".
biodb.DEBUG[2025-08-30 16:02:48.408][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-08-30 16:02:48.409][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-08-30 16:02:48.410][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=69550".
biodb.TRACE[2025-08-30 16:02:48.851][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=69550).
biodb.DEBUG[2025-08-30 16:02:49.190][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-08-30 16:02:49.194][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/05703421c7bf99b1d8473c1de6165168.content"
biodb.TRACE[2025-08-30 16:02:49.201][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/05703421c7bf99b1d8473c1de6165168.request"
biodb.TRACE[2025-08-30 16:02:49.207][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/69550.xml"
biodb.DEBUG[2025-08-30 16:02:49.210][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-08-30 16:02:49.213][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-30 16:02:49.215][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-30 16:02:49.219][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:49.221][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:49.223][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:49.232][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:49.234][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:49.236][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:49.238][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:02:49.242][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:49.244][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:49.245][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:49.247][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:49.249][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:49.250][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:49.252][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:49.253][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:49.254][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:02:49.256][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:02:49.257][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:49.258][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:49.260][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:02:49.261][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:02:49.263][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:49.264][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:49.265][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:02:49.266][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:02:49.267][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:49.268][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:49.270][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:02:49.271][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:02:49.272][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:49.273][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:49.274][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:02:49.275][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:02:49.276][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:49.277][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:49.278][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:02:49.279][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:02:49.280][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:49.281][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:49.282][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:02:49.283][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:02:49.284][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:49.285][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:49.286][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:02:49.287][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:02:49.288][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:49.289][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:49.290][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:02:49.291][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:02:49.292][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:49.293][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:49.294][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:02:49.295][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:49.296][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:49.297][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:49.298][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:02:49.299][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:49.300][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:49.301][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:49.302][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:49.303][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:49.304][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:49.305][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:49.306][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:49.307][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:49.308][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:49.309][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:49.310][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:02:49.311][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:02:49.312][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:49.313][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:49.314][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:02:49.315][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:02:49.316][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:49.317][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:49.318][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:02:49.319][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:02:49.320][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:49.321][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:49.322][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:02:49.323][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:02:49.324][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:49.324][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:49.326][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:02:49.327][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:02:49.327][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:49.328][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:49.329][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:02:49.330][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:02:49.331][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:49.332][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:49.333][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:49.334][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:49.335][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:49.336][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:49.337][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:49.338][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:49.339][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:49.340][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:49.341][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:49.342][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:49.343][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:49.344][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:49.345][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:49.346][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:49.347][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:49.348][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:49.349][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:49.350][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:49.350][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:49.351][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:49.352][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:49.353][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:49.354][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:49.355][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:49.356][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:49.357][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:49.358][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:49.367][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:49.369][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:49.370][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:49.371][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:49.372][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:49.373][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:49.374][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:49.375][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:49.375][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:49.376][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:49.377][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:49.378][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:49.379][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:49.380][self$createEntryFromContent] Accession numbers: 69550.
biodb.TRACE[2025-08-30 16:02:49.381][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:49.382][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:49.383][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:49.384][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:49.385][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:49.386][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:49.387][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:49.388][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:49.389][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:49.390][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:49.390][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:49.391][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:49.392][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:49.393][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:49.394][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:49.398][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:49.399][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:49.400][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:49.401][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:02:49.402][private$loadEntries] Creating entries from ids [1]: "71520".
biodb.DEBUG[2025-08-30 16:02:49.403][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-08-30 16:02:49.404][cch$loadFileContent] Trying to load 1 files from cache: [1]: "71520".
biodb.TRACE[2025-08-30 16:02:49.405][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-08-30 16:02:49.406][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-08-30 16:02:49.407][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-30 16:02:49.408][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-08-30 16:02:49.409][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-08-30 16:02:49.410][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-08-30 16:02:49.412][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:49.413][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:49.414][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:49.418][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:49.419][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:49.420][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:49.421][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:02:49.422][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=71520".
biodb.DEBUG[2025-08-30 16:02:49.424][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-08-30 16:02:49.425][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-08-30 16:02:49.427][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=71520".
biodb.TRACE[2025-08-30 16:02:49.762][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=71520).
biodb.DEBUG[2025-08-30 16:02:50.105][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-08-30 16:02:50.110][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/e7ceab0ba86590faa4ea87df2e390610.content"
biodb.TRACE[2025-08-30 16:02:50.117][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/e7ceab0ba86590faa4ea87df2e390610.request"
biodb.TRACE[2025-08-30 16:02:50.123][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/71520.xml"
biodb.DEBUG[2025-08-30 16:02:50.126][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-08-30 16:02:50.129][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-30 16:02:50.131][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-30 16:02:50.135][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:50.137][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:50.139][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:50.148][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:50.150][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:50.152][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:50.153][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:02:50.157][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:50.159][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:50.160][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:50.162][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:50.164][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:50.165][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:50.167][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:50.168][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:50.170][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:02:50.171][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:02:50.173][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:50.174][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:50.175][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:02:50.177][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:02:50.178][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:50.179][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:50.180][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:02:50.182][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:02:50.183][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:50.184][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:50.185][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:02:50.186][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:02:50.187][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:50.188][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:50.189][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:02:50.191][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:02:50.192][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:50.193][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:50.194][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:02:50.195][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:02:50.196][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:50.197][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:50.198][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:02:50.199][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:02:50.200][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:50.201][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:50.202][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:02:50.203][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:02:50.204][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:50.205][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:50.206][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:02:50.207][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:02:50.208][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:50.208][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:50.210][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:02:50.211][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:50.212][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:50.212][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:50.214][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:02:50.215][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:50.216][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:50.216][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:50.218][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:50.219][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:50.219][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:50.220][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:50.221][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:50.223][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:50.223][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:50.224][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:50.225][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:02:50.226][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:02:50.227][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:50.228][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:50.229][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:02:50.231][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:02:50.231][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:50.232][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:50.233][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:02:50.234][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:02:50.235][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:50.236][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:50.237][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:02:50.238][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:02:50.239][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:50.240][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:50.241][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:02:50.242][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:02:50.243][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:50.244][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:50.245][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:02:50.246][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:02:50.247][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:50.248][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:50.249][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:50.250][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:50.251][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:50.252][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:50.253][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:50.254][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:50.255][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:50.256][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:50.257][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:50.258][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:50.259][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:50.259][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:50.260][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:50.261][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:50.262][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:50.263][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:50.264][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:50.265][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:50.266][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:50.267][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:50.268][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:50.269][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:50.270][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:50.271][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:50.272][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:50.273][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:50.274][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:50.275][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:50.276][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:50.277][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:50.278][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:50.279][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:50.279][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:50.280][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:50.281][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:50.282][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:50.283][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:50.284][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:50.285][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:50.286][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:50.287][self$createEntryFromContent] Accession numbers: 71520.
biodb.TRACE[2025-08-30 16:02:50.288][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:50.289][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:50.290][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:50.291][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:50.292][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:50.293][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:50.294][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:50.295][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:50.296][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:50.297][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:50.297][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:50.298][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:50.299][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:50.300][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:50.301][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:50.305][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:50.306][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:50.307][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:50.308][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:02:50.309][private$loadEntries] Creating entries from ids [1]: "77600".
biodb.DEBUG[2025-08-30 16:02:50.310][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-08-30 16:02:50.311][cch$loadFileContent] Trying to load 1 files from cache: [1]: "77600".
biodb.TRACE[2025-08-30 16:02:50.313][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-08-30 16:02:50.314][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-08-30 16:02:50.315][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-30 16:02:50.316][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-08-30 16:02:50.317][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-08-30 16:02:50.317][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-08-30 16:02:50.320][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:50.321][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:50.322][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:50.326][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:50.327][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:50.328][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:50.328][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:02:50.330][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=77600".
biodb.DEBUG[2025-08-30 16:02:50.332][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-08-30 16:02:50.333][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-08-30 16:02:50.334][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=77600".
biodb.TRACE[2025-08-30 16:02:50.682][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=77600).
biodb.DEBUG[2025-08-30 16:02:51.029][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-08-30 16:02:51.034][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/91aa415bb91d90afd912e94b5d252faa.content"
biodb.TRACE[2025-08-30 16:02:51.041][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/91aa415bb91d90afd912e94b5d252faa.request"
biodb.TRACE[2025-08-30 16:02:51.046][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/77600.xml"
biodb.DEBUG[2025-08-30 16:02:51.050][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-08-30 16:02:51.052][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-30 16:02:51.055][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-30 16:02:51.059][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:51.061][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:51.063][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:51.072][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:51.074][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:51.076][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:51.077][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:02:51.081][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:51.083][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:51.084][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:51.086][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:51.088][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:51.089][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:51.091][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:51.092][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:51.094][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:02:51.095][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:02:51.097][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:51.098][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:51.099][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:02:51.101][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:02:51.102][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:51.103][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:51.105][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:02:51.106][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:02:51.107][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:51.108][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:51.109][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:02:51.110][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:02:51.112][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:51.113][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:51.114][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:02:51.115][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:02:51.116][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:51.117][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:51.118][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:02:51.119][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:02:51.120][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:51.121][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:51.122][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:02:51.123][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:02:51.124][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:51.125][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:51.126][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:02:51.127][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:02:51.128][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:51.129][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:51.130][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:02:51.131][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:02:51.132][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:51.133][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:51.134][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:02:51.135][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:51.136][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:51.148][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:51.149][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:02:51.150][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:51.151][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:51.152][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:51.153][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:51.154][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:51.155][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:51.156][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:51.157][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:51.158][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:51.159][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:51.159][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:51.160][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:02:51.161][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:02:51.162][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:51.163][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:51.164][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:02:51.165][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:02:51.166][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:51.167][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:51.168][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:02:51.169][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:02:51.170][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:51.171][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:51.172][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:02:51.173][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:02:51.174][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:51.175][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:51.176][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:02:51.177][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:02:51.178][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:51.179][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:51.180][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:02:51.181][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:02:51.182][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:51.183][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:51.184][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:51.185][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:51.186][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:51.186][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:51.187][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:51.188][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:51.189][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:51.190][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:51.191][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:51.192][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:51.193][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:51.194][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:51.195][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:51.196][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:51.197][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:51.198][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:51.199][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:51.200][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:51.200][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:51.201][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:51.202][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:51.203][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:51.204][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:51.205][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:51.206][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:51.207][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:51.208][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:51.209][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:51.210][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:51.211][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:51.212][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:51.213][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:51.214][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:51.215][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:51.215][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:51.216][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:51.217][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:51.218][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:51.219][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:51.220][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:51.221][self$createEntryFromContent] Accession numbers: 77600.
biodb.TRACE[2025-08-30 16:02:51.222][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:51.223][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:51.224][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:51.225][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:51.226][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:51.227][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:51.228][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:51.229][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:51.230][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:51.231][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:51.231][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:51.232][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:51.233][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:51.234][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:51.235][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:51.239][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:51.240][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:51.241][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:51.242][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:02:51.243][private$loadEntries] Creating entries from ids [1]: "77601".
biodb.DEBUG[2025-08-30 16:02:51.244][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-08-30 16:02:51.245][cch$loadFileContent] Trying to load 1 files from cache: [1]: "77601".
biodb.TRACE[2025-08-30 16:02:51.247][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-08-30 16:02:51.248][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-08-30 16:02:51.249][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-30 16:02:51.250][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-08-30 16:02:51.251][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-08-30 16:02:51.251][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-08-30 16:02:51.254][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:51.255][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:51.256][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:51.260][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:51.261][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:51.262][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:51.262][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:02:51.264][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=77601".
biodb.DEBUG[2025-08-30 16:02:51.266][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-08-30 16:02:51.267][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-08-30 16:02:51.268][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=77601".
biodb.TRACE[2025-08-30 16:02:51.609][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=77601).
biodb.DEBUG[2025-08-30 16:02:51.951][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-08-30 16:02:51.956][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/ff0e48db0e5117b4127b12d15d1485a8.content"
biodb.TRACE[2025-08-30 16:02:51.963][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/ff0e48db0e5117b4127b12d15d1485a8.request"
biodb.TRACE[2025-08-30 16:02:51.968][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/77601.xml"
biodb.DEBUG[2025-08-30 16:02:51.972][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-08-30 16:02:51.974][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-30 16:02:51.977][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-30 16:02:51.981][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:51.983][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:51.985][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:51.994][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:51.996][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:51.998][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:52.000][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:02:52.003][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:52.005][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:52.007][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:52.008][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:52.010][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:52.012][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:52.013][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:52.014][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:52.016][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:02:52.017][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:02:52.019][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:52.020][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:52.022][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:02:52.023][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:02:52.024][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:52.025][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:52.027][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:02:52.028][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:02:52.029][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:52.030][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:52.032][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:02:52.033][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:02:52.034][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:52.035][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:52.036][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:02:52.037][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:02:52.038][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:52.039][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:52.040][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:02:52.041][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:02:52.042][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:52.043][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:52.044][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:02:52.045][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:02:52.046][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:52.047][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:52.048][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:02:52.049][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:02:52.050][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:52.051][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:52.052][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:02:52.053][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:02:52.054][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:52.055][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:52.056][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:02:52.057][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:52.058][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:52.059][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:52.060][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:02:52.061][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:52.062][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:52.063][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:52.064][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:52.065][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:52.066][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:52.067][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:52.068][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:52.069][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:52.070][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:52.071][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:52.072][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:02:52.073][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:02:52.074][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:52.075][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:52.076][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:02:52.077][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:02:52.078][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:52.079][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:52.080][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:02:52.081][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:02:52.082][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:52.082][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:52.084][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:02:52.085][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:02:52.086][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:52.086][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:52.087][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:02:52.088][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:02:52.089][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:52.090][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:52.091][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:02:52.092][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:02:52.093][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:52.094][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:52.095][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:52.096][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:52.097][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:52.098][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:52.099][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:52.100][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:52.101][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:52.102][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:52.103][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:52.104][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:52.105][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:52.106][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:52.107][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:52.108][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:52.109][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:52.109][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:52.110][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:52.111][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:52.112][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:52.113][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:52.114][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:52.115][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:52.116][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:52.117][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:52.118][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:52.119][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:52.120][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:52.121][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:52.122][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:52.123][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:52.124][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:52.125][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:52.126][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:52.127][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:52.128][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:52.129][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:52.129][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:52.130][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:52.131][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:52.132][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:52.133][self$createEntryFromContent] Accession numbers: 77601.
biodb.TRACE[2025-08-30 16:02:52.134][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:52.135][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:52.136][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:52.137][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:52.138][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:52.139][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:52.140][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:52.141][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:52.142][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:52.143][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:52.144][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:52.145][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:52.146][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-08-30 16:02:52.147][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:52.148][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:52.149][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:52.153][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:52.154][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:52.155][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:52.156][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:02:52.157][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:52.158][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:52.159][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:52.160][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:52.161][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:52.162][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:52.163][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:52.164][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:52.165][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:02:52.165][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:02:52.166][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:02:52.167][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:02:52.168][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:02:52.169][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:52.170][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:52.171][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:52.172][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:52.173][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:52.174][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:52.175][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:52.176][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:52.177][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:02:52.178][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:02:52.179][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:52.180][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:52.180][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:52.181][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:52.182][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-30 16:02:52.183][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:52.184][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:52.185][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:52.186][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:52.195][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:52.197][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:52.198][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:52.199][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:52.200][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:52.201][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:52.202][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:52.203][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:52.204][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [64199].
biodb.DEBUG[2025-08-30 16:02:52.205][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:52.206][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:52.207][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:52.211][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:52.212][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:52.213][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:52.213][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:02:52.214][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:52.215][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:52.216][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:52.217][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:52.218][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:52.219][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:52.220][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:52.221][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:52.222][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:02:52.223][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:02:52.224][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:02:52.225][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:02:52.225][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:02:52.226][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:52.227][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:52.228][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:52.229][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:52.230][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:52.231][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:52.232][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:52.233][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:52.234][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:02:52.235][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:02:52.236][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:52.237][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:52.237][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:52.238][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:52.239][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-30 16:02:52.240][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:52.241][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:52.242][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:52.243][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:52.244][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:52.245][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:52.246][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:52.247][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:52.248][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:52.249][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:52.250][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:52.250][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:52.252][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [77600].
biodb.DEBUG[2025-08-30 16:02:52.253][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:52.254][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:52.254][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:52.258][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:52.259][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:52.260][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:52.261][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:02:52.262][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:52.263][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:52.264][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:52.265][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:52.266][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:52.267][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:52.268][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:52.269][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:52.270][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:02:52.271][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:02:52.271][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:02:52.272][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:02:52.273][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:02:52.274][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:52.275][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:52.276][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:52.277][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:52.278][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:52.279][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:52.280][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:52.281][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:52.282][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:02:52.283][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:02:52.283][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:52.284][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:52.285][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:52.286][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:52.287][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-30 16:02:52.288][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:52.289][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:52.290][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:52.291][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:52.292][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:52.293][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:52.294][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:52.295][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:52.296][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:52.297][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:52.298][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:52.299][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:52.300][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [77601].
biodb.DEBUG[2025-08-30 16:02:52.301][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-08-30 16:02:52.302][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-08-30 16:02:52.309][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2025-08-30 16:02:52.310][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2025-08-30 16:02:52.311][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:52.312][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:52.313][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2025-08-30 16:02:52.314][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2025-08-30 16:02:52.315][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:52.316][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:52.317][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2025-08-30 16:02:52.318][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2025-08-30 16:02:52.319][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:52.320][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-08-30 16:02:52.324][biodb::testThat]
biodb.INFO [2025-08-30 16:02:52.325][biodb::testThat] Running test function  test_annotateMzValues_input_dataframe_untouched  (" Input data frame is not modified by annotateMzValues() ").
biodb.INFO [2025-08-30 16:02:52.326][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-08-30 16:02:52.326][biodb::testThat]
biodb.TRACE[2025-08-30 16:02:52.329][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-08-30 16:02:52.330][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-08-30 16:02:52.331][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:52.332][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:52.333][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-08-30 16:02:52.334][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-08-30 16:02:52.335][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:52.336][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:52.337][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-08-30 16:02:52.338][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-08-30 16:02:52.339][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:52.340][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:52.341][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:52.342][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:52.343][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:52.344][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:52.345][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:52.346][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:52.347][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:52.348][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:52.349][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:52.350][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:52.350][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:52.351][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:52.352][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:52.353][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:52.354][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:52.355][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:52.356][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:52.357][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:52.358][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:52.359][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:52.360][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:52.361][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:52.362][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:52.363][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:52.364][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:52.365][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:52.366][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:52.367][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:52.368][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:52.369][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:52.370][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:52.371][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:52.372][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:52.373][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:52.373][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:52.374][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:52.375][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:52.376][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:52.377][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:52.378][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:52.379][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:52.380][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:52.381][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:52.382][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:52.383][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:52.384][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:52.385][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:52.386][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:52.391][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:52.391][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:52.392][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:52.397][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:52.398][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:52.399][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:52.400][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:02:52.402][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.72*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-08-30 16:02:52.405][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-08-30 16:02:52.406][cch$loadFileContent] Trying to load 1 files from cache: [1]: "dabc9e8530050c4ceebbaec76743bcf1".
biodb.TRACE[2025-08-30 16:02:52.408][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-08-30 16:02:52.409][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/dabc9e8530050c4ceebbaec76743bcf1.content".
biodb.DEBUG[2025-08-30 16:02:52.411][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:52.412][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:52.413][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:52.417][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:52.418][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:52.419][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:52.419][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:02:52.421][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:52.422][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:52.423][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:52.423][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:52.424][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:52.425][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:52.426][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:52.427][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:52.428][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:52.429][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:52.430][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:52.431][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:52.433][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.73*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-08-30 16:02:52.436][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-08-30 16:02:52.437][cch$loadFileContent] Trying to load 1 files from cache: [1]: "41b7f9723242a79cfe14bebd91dbb5b6".
biodb.TRACE[2025-08-30 16:02:52.438][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-08-30 16:02:52.440][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/41b7f9723242a79cfe14bebd91dbb5b6.content".
biodb.DEBUG[2025-08-30 16:02:52.442][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:52.443][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:52.444][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:52.448][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:52.449][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:52.450][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:52.451][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:02:52.452][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:52.453][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:52.454][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:52.455][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:52.456][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:52.457][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:52.458][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:52.458][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:52.459][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:52.460][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:52.461][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:52.462][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:52.463][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:52.464][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:52.465][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:52.469][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:52.470][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:52.471][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:52.472][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:02:52.473][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:52.474][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:52.475][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:52.476][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:52.477][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:52.478][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:52.479][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:52.479][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:52.480][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:52.481][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:52.482][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:52.483][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:52.484][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-08-30 16:02:52.486][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:52.487][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:52.488][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:52.492][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:52.493][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:52.493][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:52.494][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:02:52.495][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:52.496][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:52.497][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:52.498][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:52.499][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:52.500][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:52.501][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:52.502][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:52.503][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:02:52.504][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:02:52.505][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:02:52.506][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:02:52.507][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:02:52.508][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:52.509][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:52.509][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:52.510][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:52.511][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:52.512][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:52.513][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:52.514][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:52.515][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:02:52.516][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:02:52.517][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:52.518][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:52.519][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:52.520][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:52.525][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-30 16:02:52.527][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:52.528][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:52.528][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:52.529][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:52.530][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:52.531][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:52.532][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:52.533][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:52.534][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:52.535][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:52.536][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:52.537][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:52.538][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [192288].
biodb.DEBUG[2025-08-30 16:02:52.539][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:52.540][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:52.541][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:52.545][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:52.546][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:52.547][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:52.547][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:02:52.549][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:52.550][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:52.550][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:52.551][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:52.552][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:52.553][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:52.554][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:52.555][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:52.556][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:02:52.557][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:02:52.558][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:02:52.559][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:02:52.560][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:02:52.560][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:52.561][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:52.562][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:52.563][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:52.564][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:52.565][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:52.566][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:52.567][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:52.568][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:02:52.569][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:02:52.570][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:52.571][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:52.572][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:52.572][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:52.573][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-30 16:02:52.574][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:52.575][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:52.576][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:52.577][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:52.578][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:52.579][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:52.580][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:52.581][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:52.582][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:52.583][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:52.584][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:52.585][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:52.586][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-08-30 16:02:52.587][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:52.588][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:52.588][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:52.593][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:52.594][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:52.594][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:52.595][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:02:52.596][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:52.597][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:52.598][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:52.599][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:52.600][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:52.601][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:52.602][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:52.603][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:52.604][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:02:52.605][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:02:52.606][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:02:52.606][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:02:52.607][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:02:52.608][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:52.609][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:52.610][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:52.611][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:52.612][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:52.613][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:52.614][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:52.615][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:52.616][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:02:52.617][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:02:52.618][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:52.619][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:52.620][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:52.621][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:52.621][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-30 16:02:52.622][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:52.623][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:52.624][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:52.625][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:52.626][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:52.627][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:52.628][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:52.629][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:52.630][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:52.631][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:52.632][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:52.633][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:52.634][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [209892].
biodb.DEBUG[2025-08-30 16:02:52.635][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-08-30 16:02:52.636][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2025-08-30 16:02:52.638][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:52.639][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:52.640][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:52.644][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:52.645][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:52.646][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:52.647][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:02:52.649][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=480.62*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-08-30 16:02:52.652][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-08-30 16:02:52.653][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b3cd8ddf08f509014f10dc9bf7c1649d".
biodb.TRACE[2025-08-30 16:02:52.655][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-08-30 16:02:52.656][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b3cd8ddf08f509014f10dc9bf7c1649d.content".
biodb.DEBUG[2025-08-30 16:02:52.658][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:52.659][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:52.660][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:52.664][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:52.665][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:52.666][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:52.667][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:02:52.668][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:52.669][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:52.670][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:52.671][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:52.672][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:52.673][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:52.673][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:52.674][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:52.675][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:52.676][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:52.677][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:52.678][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:52.679][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:52.680][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:52.681][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:52.685][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:52.686][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:52.687][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:52.688][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:02:52.689][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:52.690][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:52.691][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:52.692][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:52.693][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:52.694][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:52.694][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:52.695][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:52.696][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:52.697][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:52.698][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:52.699][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:52.701][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=480.63*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-08-30 16:02:52.704][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-08-30 16:02:52.705][cch$loadFileContent] Trying to load 1 files from cache: [1]: "831507e33c6cf42061851262412f5feb".
biodb.TRACE[2025-08-30 16:02:52.706][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-08-30 16:02:52.707][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/831507e33c6cf42061851262412f5feb.content".
biodb.DEBUG[2025-08-30 16:02:52.710][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:52.711][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:52.712][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:52.716][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:52.717][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:52.717][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:52.718][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:02:52.719][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:52.720][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:52.721][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:52.722][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:52.723][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:52.724][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:52.725][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:52.726][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:52.727][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:52.728][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:52.729][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:52.730][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:52.731][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:52.732][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:52.733][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:52.737][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:52.738][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:52.738][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:52.739][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:02:52.740][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:52.741][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:52.742][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:52.743][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:52.744][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:52.745][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:52.746][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:52.747][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:52.748][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:52.749][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:52.750][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:52.751][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:52.752][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:52.753][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:52.753][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:52.758][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:52.758][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:52.759][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:52.760][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:02:52.761][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:52.762][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:52.763][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:52.764][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:52.765][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:52.766][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:52.767][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:52.768][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:52.769][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:52.770][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:52.771][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:52.772][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:52.773][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-08-30 16:02:52.774][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:52.775][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:52.776][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:52.780][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:52.781][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:52.782][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:52.783][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:02:52.784][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:52.785][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:52.786][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:52.787][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:52.787][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:52.788][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:52.789][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:52.790][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:52.791][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:02:52.792][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:02:52.793][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:02:52.794][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:02:52.795][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:02:52.796][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:52.797][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:52.798][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:52.799][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:52.800][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:52.801][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:52.802][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:52.802][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:52.803][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:02:52.804][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:02:52.805][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:52.806][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:52.807][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:52.808][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:52.809][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-30 16:02:52.810][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:52.811][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:52.812][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:52.813][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:52.814][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:52.815][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:52.816][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:52.817][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:52.818][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:52.819][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:52.820][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:52.821][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:52.822][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4781].
biodb.DEBUG[2025-08-30 16:02:52.823][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:52.824][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:52.825][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:52.829][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:52.830][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:52.831][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:52.832][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:02:52.833][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:52.834][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:52.835][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:52.836][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:52.836][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:52.838][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:52.838][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:52.839][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:52.840][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:02:52.841][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:02:52.842][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:02:52.843][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:02:52.844][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:02:52.845][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:52.846][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:52.852][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:52.853][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:52.854][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:52.855][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:52.856][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:52.857][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:52.857][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:02:52.858][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:02:52.859][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:52.860][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:52.861][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:52.862][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:52.863][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-30 16:02:52.864][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:52.865][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:52.866][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:52.867][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:52.868][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:52.869][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:52.870][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:52.871][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:52.872][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:52.873][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:52.873][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:52.874][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:52.876][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [16587].
biodb.DEBUG[2025-08-30 16:02:52.877][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:52.877][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:52.878][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:52.883][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:52.883][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:52.884][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:52.885][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:02:52.886][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:52.887][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:52.888][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:52.889][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:52.890][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:52.891][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:52.892][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:52.893][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:52.894][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:02:52.895][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:02:52.896][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:02:52.897][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:02:52.897][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:02:52.898][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:52.899][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:52.900][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:52.901][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:52.902][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:52.903][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:52.904][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:52.905][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:52.906][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:02:52.907][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:02:52.908][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:52.909][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:52.910][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:52.910][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:52.911][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-30 16:02:52.912][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:52.913][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:52.914][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:52.915][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:52.916][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:52.917][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:52.918][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:52.919][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:52.920][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:52.921][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:52.922][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:52.923][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:52.924][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [19804].
biodb.DEBUG[2025-08-30 16:02:52.925][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-08-30 16:02:52.926][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2025-08-30 16:02:52.928][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:52.928][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:52.929][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:52.933][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:52.934][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:52.935][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:52.936][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:02:52.939][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.38*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-08-30 16:02:52.941][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-08-30 16:02:52.943][cch$loadFileContent] Trying to load 1 files from cache: [1]: "26d0872875c47c33e8205aa7124e0486".
biodb.TRACE[2025-08-30 16:02:52.944][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-08-30 16:02:52.945][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/26d0872875c47c33e8205aa7124e0486.content".
biodb.DEBUG[2025-08-30 16:02:52.947][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:52.948][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:52.949][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:52.953][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:52.954][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:52.955][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:52.956][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:02:52.957][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:52.958][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:52.959][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:52.960][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:52.961][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:52.962][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:52.963][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:52.963][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:52.964][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:52.965][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:52.966][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:52.967][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:52.968][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:52.969][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:52.970][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:52.974][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:52.975][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:52.976][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:52.977][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:02:52.978][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:52.979][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:52.980][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:52.981][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:52.982][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:52.983][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:52.983][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:52.984][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:52.985][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:52.986][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:52.987][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:52.988][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:52.989][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:52.990][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:52.991][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:52.995][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:52.996][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:52.997][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:52.997][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:02:52.999][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:53.000][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:53.000][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:53.001][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:53.002][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:53.003][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:53.004][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:53.005][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:53.006][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:53.007][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:53.008][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:53.009][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:53.010][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:53.011][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:53.012][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:53.016][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:53.017][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:53.017][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:53.018][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:02:53.019][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:53.020][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:53.021][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:53.022][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:53.023][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:53.024][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:53.025][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:53.026][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:53.027][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:53.028][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:53.029][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:53.030][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:53.031][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:53.032][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:53.032][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:53.036][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:53.037][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:53.038][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:53.039][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:02:53.040][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:53.041][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:53.042][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:53.043][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:53.044][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:53.045][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:53.046][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:53.047][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:53.048][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:53.049][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:53.050][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:53.050][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:53.051][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:53.052][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:53.053][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:53.057][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:53.058][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:53.059][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:53.060][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:02:53.061][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:53.062][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:53.063][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:53.064][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:53.065][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:53.066][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:53.066][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:53.067][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:53.068][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:53.069][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:53.070][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:53.071][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:53.072][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:53.073][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:53.074][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:53.078][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:53.079][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:53.079][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:53.080][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:02:53.081][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:53.082][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:53.083][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:53.084][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:53.085][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:53.086][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:53.087][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:53.088][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:53.089][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:53.090][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:53.091][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:53.092][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:53.093][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:53.094][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:53.095][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:53.098][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:53.099][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:53.100][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:53.101][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:02:53.102][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:53.103][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:53.104][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:53.105][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:53.106][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:53.107][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:53.108][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:53.109][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:53.110][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:53.111][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:53.112][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:53.112][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:53.114][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-08-30 16:02:53.117][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-08-30 16:02:53.118][cch$loadFileContent] Trying to load 1 files from cache: [1]: "357534c211a0779cb44e196fcebae6c0".
biodb.TRACE[2025-08-30 16:02:53.119][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-08-30 16:02:53.121][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/357534c211a0779cb44e196fcebae6c0.content".
biodb.DEBUG[2025-08-30 16:02:53.123][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:53.124][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:53.125][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:53.129][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:53.129][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:53.130][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:53.131][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:02:53.132][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:53.133][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:53.134][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:53.135][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:53.136][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:53.137][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:53.138][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:53.139][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:53.140][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:53.141][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:53.142][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:53.143][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:53.144][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:53.144][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:53.145][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:53.149][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:53.150][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:53.151][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:53.152][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:02:53.153][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:53.154][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:53.155][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:53.156][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:53.157][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:53.158][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:53.159][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:53.160][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:53.161][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:53.162][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:53.162][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:53.163][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:53.164][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:53.165][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:53.166][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:53.170][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:53.175][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:53.177][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:53.177][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:02:53.179][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:53.180][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:53.180][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:53.181][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:53.182][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:53.183][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:53.184][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:53.185][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:53.186][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:53.187][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:53.188][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:53.189][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:53.190][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-08-30 16:02:53.191][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:53.192][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:53.193][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:53.197][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:53.198][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:53.199][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:53.199][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:02:53.201][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:53.202][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:53.202][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:53.203][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:53.204][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:53.205][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:53.206][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:53.207][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:53.208][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:02:53.209][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:02:53.210][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:02:53.211][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:02:53.212][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:02:53.212][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:53.213][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:53.214][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:53.215][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:53.216][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:53.217][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:53.218][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:53.219][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:53.220][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:02:53.221][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:02:53.222][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:53.223][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:53.224][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:53.224][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:53.225][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-30 16:02:53.226][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:53.227][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:53.228][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:53.229][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:53.230][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:53.231][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:53.232][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:53.233][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:53.234][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:53.235][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:53.236][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:53.237][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:53.238][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [7799].
biodb.DEBUG[2025-08-30 16:02:53.239][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:53.240][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:53.241][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:53.245][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:53.245][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:53.246][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:53.247][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:02:53.248][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:53.249][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:53.250][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:53.251][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:53.252][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:53.253][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:53.254][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:53.255][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:53.256][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:02:53.257][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:02:53.258][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:02:53.258][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:02:53.259][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:02:53.260][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:53.261][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:53.262][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:53.263][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:53.264][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:53.265][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:53.266][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:53.267][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:53.268][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:02:53.269][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:02:53.270][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:53.271][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:53.272][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:53.272][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:53.273][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-30 16:02:53.274][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:53.275][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:53.276][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:53.277][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:53.278][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:53.279][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:53.280][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:53.281][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:53.282][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:53.283][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:53.284][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:53.285][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:53.286][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [71954].
biodb.DEBUG[2025-08-30 16:02:53.287][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:53.288][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:53.289][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:53.293][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:53.294][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:53.295][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:53.296][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:02:53.297][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:53.298][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:53.299][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:53.300][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:53.301][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:53.302][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:53.302][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:53.303][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:53.304][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:02:53.305][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:02:53.306][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:02:53.307][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:02:53.308][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:02:53.309][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:53.310][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:53.311][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:53.312][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:53.313][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:53.314][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:53.315][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:53.316][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:53.317][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:02:53.318][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:02:53.318][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:53.319][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:53.320][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:53.321][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:53.322][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-30 16:02:53.323][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:53.324][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:53.325][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:53.326][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:53.327][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:53.328][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:53.329][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:53.330][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:53.331][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:53.332][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:53.333][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:53.334][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:53.335][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [197612].
biodb.DEBUG[2025-08-30 16:02:53.336][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-08-30 16:02:53.337][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-08-30 16:02:53.353][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:53.354][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:53.355][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:53.356][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:53.357][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:53.358][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:53.359][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:53.360][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:53.361][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:53.362][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:53.363][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:53.364][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:53.365][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:53.366][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:53.367][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:53.368][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:53.369][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:53.370][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:53.371][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:53.371][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:53.372][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:53.373][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:53.374][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:53.375][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:53.376][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:53.377][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:53.378][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:53.379][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:53.380][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:53.381][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:53.382][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:53.383][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:53.384][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:53.385][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:53.386][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:53.387][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:53.388][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:53.389][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:53.390][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:53.391][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:53.392][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:53.393][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:53.393][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:53.394][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:53.395][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:53.396][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:53.397][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:53.398][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:53.403][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:53.403][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:53.404][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:53.408][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:53.409][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:53.410][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:53.411][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:02:53.414][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.38*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-08-30 16:02:53.417][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-08-30 16:02:53.418][cch$loadFileContent] Trying to load 1 files from cache: [1]: "49f51d93ac229648aa454636918ce386".
biodb.TRACE[2025-08-30 16:02:53.419][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-08-30 16:02:53.420][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/49f51d93ac229648aa454636918ce386.content".
biodb.DEBUG[2025-08-30 16:02:53.423][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-08-30 16:02:53.426][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-08-30 16:02:53.428][cch$loadFileContent] Trying to load 1 files from cache: [1]: "121ea95906eb67bed88948c362686e4f".
biodb.TRACE[2025-08-30 16:02:53.429][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-08-30 16:02:53.430][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/121ea95906eb67bed88948c362686e4f.content".
biodb.DEBUG[2025-08-30 16:02:53.432][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:53.433][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:53.434][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:53.438][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:53.439][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:53.440][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:53.441][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:02:53.442][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:53.443][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:53.444][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:53.445][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:53.446][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:53.447][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:53.448][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:53.449][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:53.450][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:53.451][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:53.451][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:53.452][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:53.453][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:53.454][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:53.455][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:53.459][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:53.460][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:53.461][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:53.462][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:02:53.463][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:53.464][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:53.465][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:53.466][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:53.467][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:53.468][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:53.469][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:53.470][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:53.470][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:53.472][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:53.472][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:53.473][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:53.474][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:53.475][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:53.476][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:53.480][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:53.481][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:53.482][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:53.483][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:02:53.484][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:53.485][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:53.486][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:53.487][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:53.488][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:53.489][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:53.489][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:53.490][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:53.491][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:53.492][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:53.493][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:53.494][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:53.495][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-08-30 16:02:53.502][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:53.502][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:53.503][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:53.507][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:53.508][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:53.509][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:53.510][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:02:53.511][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:53.512][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:53.513][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:53.514][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:53.515][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:53.516][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:53.516][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:53.517][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:53.518][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:02:53.519][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:02:53.520][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:02:53.521][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:02:53.522][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:02:53.523][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:53.524][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:53.525][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:53.526][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:53.527][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:53.528][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:53.528][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:53.529][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:53.530][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:02:53.531][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:02:53.532][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:53.533][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:53.534][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:53.535][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:53.536][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-30 16:02:53.537][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:53.538][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:53.539][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:53.539][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:53.540][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:53.541][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:53.542][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:53.543][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:53.544][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:53.545][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:53.546][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:53.547][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:53.548][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4648].
biodb.DEBUG[2025-08-30 16:02:53.549][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:53.550][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:53.551][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:53.555][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:53.556][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:53.557][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:53.557][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:02:53.558][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:53.559][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:53.560][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:53.561][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:53.562][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:53.563][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:53.564][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:53.565][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:53.566][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:02:53.567][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:02:53.568][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:02:53.569][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:02:53.570][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:02:53.571][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:53.571][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:53.572][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:53.573][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:53.574][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:53.575][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:53.576][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:53.577][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:53.578][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:02:53.579][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:02:53.580][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:53.581][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:53.582][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:53.583][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:53.584][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-30 16:02:53.584][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:53.585][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:53.586][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:53.587][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:53.588][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:53.589][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:53.590][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:53.591][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:53.592][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:53.593][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:53.594][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:53.595][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:53.596][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-08-30 16:02:53.597][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:53.598][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:53.599][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:53.603][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:53.604][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:53.605][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:53.606][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:02:53.607][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:53.608][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:53.609][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:53.610][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:53.611][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:53.612][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:53.612][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:53.613][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:53.614][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:02:53.615][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:02:53.616][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:02:53.617][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:02:53.618][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:02:53.619][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:53.620][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:53.621][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:53.622][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:53.623][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:53.624][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:53.625][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:53.626][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:53.627][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:02:53.628][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:02:53.628][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:53.629][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:53.630][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:53.631][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:53.632][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-30 16:02:53.633][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:53.634][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:53.635][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:53.636][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:53.637][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:53.638][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:53.639][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:53.640][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:53.641][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:53.642][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:53.643][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:53.644][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:53.645][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [62447].
biodb.DEBUG[2025-08-30 16:02:53.646][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-08-30 16:02:53.647][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2025-08-30 16:02:53.649][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:53.650][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:53.651][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:53.655][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:53.656][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:53.657][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:53.657][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:02:53.660][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=480.29*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-08-30 16:02:53.663][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-08-30 16:02:53.664][cch$loadFileContent] Trying to load 1 files from cache: [1]: "7269bbea581f1e243800f8ee4e0f4fdb".
biodb.TRACE[2025-08-30 16:02:53.665][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-08-30 16:02:53.667][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/7269bbea581f1e243800f8ee4e0f4fdb.content".
biodb.DEBUG[2025-08-30 16:02:53.669][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:53.670][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:53.670][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:53.675][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:53.675][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:53.676][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:53.677][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:02:53.678][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:53.679][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:53.680][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:53.681][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:53.682][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:53.683][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:53.684][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:53.685][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:53.686][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:53.687][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:53.688][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:53.689][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:53.690][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:53.691][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:53.691][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:53.695][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:53.696][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:53.697][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:53.698][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:02:53.699][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:53.700][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:53.701][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:53.702][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:53.703][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:53.704][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:53.705][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:53.706][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:53.707][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:53.708][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:53.709][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:53.710][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:53.711][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:53.711][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:53.712][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:53.716][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:53.717][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:53.718][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:53.719][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:02:53.720][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:53.721][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:53.722][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:53.723][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:53.724][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:53.725][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:53.726][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:53.727][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:53.728][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:53.729][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:53.730][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:53.730][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:53.732][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-08-30 16:02:53.733][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:53.734][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:53.735][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:53.739][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:53.740][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:53.740][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:53.741][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:02:53.742][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:53.743][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:53.744][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:53.745][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:53.746][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:53.747][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:53.748][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:53.749][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:53.750][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:02:53.751][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:02:53.752][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:02:53.753][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:02:53.754][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:02:53.755][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:53.756][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:53.757][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:53.758][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:53.758][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:53.759][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:53.760][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:53.761][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:53.762][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:02:53.763][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:02:53.764][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:53.765][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:53.766][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:53.767][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:53.768][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-30 16:02:53.769][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:53.770][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:53.771][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:53.772][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:53.773][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:53.774][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:53.775][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:53.775][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:53.776][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:53.777][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:53.778][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:53.779][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:53.781][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4781].
biodb.DEBUG[2025-08-30 16:02:53.782][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:53.782][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:53.783][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:53.787][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:53.788][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:53.789][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:53.790][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:02:53.791][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:53.792][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:53.793][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:53.794][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:53.795][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:53.796][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:53.797][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:53.798][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:53.799][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:02:53.800][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:02:53.801][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:02:53.801][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:02:53.802][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:02:53.803][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:53.804][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:53.805][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:53.806][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:53.807][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:53.808][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:53.809][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:53.810][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:53.811][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:02:53.812][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:02:53.813][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:53.814][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:53.815][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:53.815][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:53.816][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-30 16:02:53.817][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:53.818][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:53.824][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:53.825][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:53.826][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:53.827][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:53.828][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:53.829][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:53.830][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:53.831][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:53.832][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:53.833][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:53.834][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [91601].
biodb.DEBUG[2025-08-30 16:02:53.835][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:53.836][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:53.837][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:53.841][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:53.841][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:53.842][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:53.843][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:02:53.844][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:53.845][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:53.846][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:53.847][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:53.848][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:53.849][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:53.850][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:53.851][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:53.852][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:02:53.853][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:02:53.853][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:02:53.854][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:02:53.855][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:02:53.856][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:53.857][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:53.858][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:53.859][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:53.860][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:53.861][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:53.862][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:53.863][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:53.864][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:02:53.864][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:02:53.865][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:53.866][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:53.867][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:53.868][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:53.869][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-30 16:02:53.870][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:53.871][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:53.872][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:53.873][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:53.874][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:53.875][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:53.876][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:53.877][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:53.877][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:53.878][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:53.879][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:53.880][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:53.881][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [95147].
biodb.DEBUG[2025-08-30 16:02:53.882][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-08-30 16:02:53.883][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2025-08-30 16:02:53.885][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:53.886][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:53.887][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:53.891][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:53.892][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:53.893][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:53.894][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:02:53.896][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.17*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-08-30 16:02:53.899][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-08-30 16:02:53.900][cch$loadFileContent] Trying to load 1 files from cache: [1]: "acfa4b558978abf12409c2b56e678d03".
biodb.TRACE[2025-08-30 16:02:53.902][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-08-30 16:02:53.903][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/acfa4b558978abf12409c2b56e678d03.content".
biodb.DEBUG[2025-08-30 16:02:53.905][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:53.906][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:53.907][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:53.911][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:53.912][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:53.913][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:53.914][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:02:53.915][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:53.916][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:53.917][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:53.918][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:53.919][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:53.920][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:53.920][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:53.921][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:53.922][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:53.923][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:53.924][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:53.925][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:53.926][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:53.927][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:53.928][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:53.932][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:53.933][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:53.934][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:53.934][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:02:53.936][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:53.937][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:53.937][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:53.938][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:53.939][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:53.940][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:53.941][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:53.942][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:53.943][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:53.944][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:53.945][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:53.946][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:53.947][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:53.948][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:53.949][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:53.953][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:53.954][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:53.954][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:53.955][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:02:53.956][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:53.957][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:53.958][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:53.959][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:53.960][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:53.961][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:53.962][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:53.963][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:53.964][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:53.965][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:53.966][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:53.967][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:53.968][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-08-30 16:02:53.970][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:53.970][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:53.971][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:53.975][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:53.976][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:53.977][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:53.978][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:02:53.979][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:53.980][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:53.981][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:53.982][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:53.983][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:53.984][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:53.985][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:53.986][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:53.987][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:02:53.988][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:02:53.988][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:02:53.989][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:02:53.990][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:02:53.991][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:53.992][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:53.993][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:53.994][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:53.995][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:53.996][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:53.997][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:53.998][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:53.999][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:02:54.000][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:02:54.001][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:54.002][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:54.003][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:54.003][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:54.004][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-30 16:02:54.005][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:54.006][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:54.007][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:54.008][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:54.009][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:54.010][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:54.011][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:54.012][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:54.013][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:54.014][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:54.015][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:54.016][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:54.017][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [636].
biodb.DEBUG[2025-08-30 16:02:54.018][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:54.019][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:54.020][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:54.024][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:54.025][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:54.026][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:54.026][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:02:54.028][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:54.029][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:54.029][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:54.030][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:54.031][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:54.032][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:54.033][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:54.034][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:54.035][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:02:54.036][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:02:54.037][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:02:54.038][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:02:54.039][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:02:54.040][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:54.041][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:54.042][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:54.042][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:54.043][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:54.044][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:54.045][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:54.046][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:54.047][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:02:54.048][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:02:54.049][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:54.050][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:54.051][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:54.052][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:54.053][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-30 16:02:54.054][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:54.055][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:54.056][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:54.057][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:54.058][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:54.059][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:54.060][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:54.060][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:54.061][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:54.062][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:54.063][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:54.064][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:54.065][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [64199].
biodb.DEBUG[2025-08-30 16:02:54.066][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:54.067][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:54.068][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:54.072][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:54.073][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:54.074][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:54.075][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:02:54.076][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:54.077][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:54.078][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:54.079][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:54.080][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:54.081][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:54.082][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:54.083][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:54.084][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:02:54.085][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:02:54.085][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:02:54.086][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:02:54.087][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:02:54.088][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:54.089][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:54.090][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:54.091][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:54.092][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:54.093][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:54.094][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:54.095][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:54.096][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:02:54.097][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:02:54.098][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:54.099][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:54.100][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:54.100][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:54.101][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-30 16:02:54.102][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:54.103][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:54.104][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:54.105][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:54.106][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:54.107][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:54.108][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:54.109][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:54.110][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:54.111][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:54.112][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:54.113][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:54.114][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [65648].
biodb.DEBUG[2025-08-30 16:02:54.115][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-08-30 16:02:54.116][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-08-30 16:02:54.132][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2025-08-30 16:02:54.133][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2025-08-30 16:02:54.134][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:54.135][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:54.136][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2025-08-30 16:02:54.137][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2025-08-30 16:02:54.138][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:54.139][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:54.140][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2025-08-30 16:02:54.145][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2025-08-30 16:02:54.146][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:54.147][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:54.150][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:02:54.151][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:02:54.152][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:54.153][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:54.154][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:54.155][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:54.156][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:54.157][ef$get] fields variable is a list.
biodb.INFO [2025-08-30 16:02:54.158][biodb::testThat]
biodb.INFO [2025-08-30 16:02:54.159][biodb::testThat] Running test function  test.annotateMzValues_real_values  (" annotateMzValues() works correctly with real values. ").
biodb.INFO [2025-08-30 16:02:54.160][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-08-30 16:02:54.161][biodb::testThat]
biodb.TRACE[2025-08-30 16:02:54.164][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-08-30 16:02:54.165][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-08-30 16:02:54.166][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:54.166][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:54.167][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-08-30 16:02:54.168][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-08-30 16:02:54.169][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:54.170][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:54.171][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-08-30 16:02:54.172][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-08-30 16:02:54.173][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:54.174][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:54.175][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:54.176][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:54.177][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:54.178][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:54.179][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:54.180][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:54.180][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:54.181][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:54.182][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:54.183][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:54.184][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:54.185][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:54.186][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:54.187][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:54.188][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:54.189][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:54.190][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:54.191][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:54.192][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:54.193][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:54.194][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:54.195][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:54.195][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:54.196][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:54.197][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:54.198][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:54.199][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:54.200][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:54.201][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:54.202][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:54.203][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:54.204][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:54.205][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:54.206][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:54.207][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:54.208][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:54.209][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:54.210][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:54.211][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:54.212][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:54.212][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:54.213][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:54.214][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:54.215][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:54.216][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:54.217][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:54.218][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:54.219][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:54.222][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:54.223][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:54.224][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:54.228][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:54.229][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:54.230][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:54.231][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:02:54.233][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.5*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-08-30 16:02:54.236][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-08-30 16:02:54.237][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-08-30 16:02:54.239][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.5%2A&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.TRACE[2025-08-30 16:02:54.575][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.5%2A&searchCategory=MASS&maximumResults=0&starsCategory=ALL).
biodb.DEBUG[2025-08-30 16:02:55.087][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2025-08-30 16:02:55.092][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/ebf8c17fa19fb0caf99d83ca8441a2ac.content"
biodb.TRACE[2025-08-30 16:02:55.100][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/ebf8c17fa19fb0caf99d83ca8441a2ac.request"
biodb.DEBUG[2025-08-30 16:02:55.113][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:55.115][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:55.117][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:55.126][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:55.128][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:55.130][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:55.132][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:02:55.134][private$loadEntries] Creating entries from ids [1]: "3014".
biodb.DEBUG[2025-08-30 16:02:55.136][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-08-30 16:02:55.139][cch$loadFileContent] Trying to load 1 files from cache: [1]: "3014".
biodb.TRACE[2025-08-30 16:02:55.141][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-08-30 16:02:55.142][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-08-30 16:02:55.144][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-30 16:02:55.146][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-08-30 16:02:55.147][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-08-30 16:02:55.149][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-08-30 16:02:55.152][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:55.154][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:55.155][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:55.160][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:55.161][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:55.162][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:55.163][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:02:55.165][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=3014".
biodb.DEBUG[2025-08-30 16:02:55.168][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-08-30 16:02:55.169][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-08-30 16:02:55.170][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=3014".
biodb.TRACE[2025-08-30 16:02:55.515][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=3014).
biodb.DEBUG[2025-08-30 16:02:55.855][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-08-30 16:02:55.859][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/48c0bb0df5de824dbe83babbff8d81fe.content"
biodb.TRACE[2025-08-30 16:02:55.866][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/48c0bb0df5de824dbe83babbff8d81fe.request"
biodb.TRACE[2025-08-30 16:02:55.872][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/3014.xml"
biodb.DEBUG[2025-08-30 16:02:55.875][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-08-30 16:02:55.878][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-30 16:02:55.880][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-30 16:02:55.884][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:55.886][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:55.888][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:55.897][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:55.899][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:55.901][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:55.903][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:02:55.907][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:55.908][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:55.910][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:55.912][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:55.913][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:55.915][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:55.917][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:55.918][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:55.920][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:02:55.921][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:02:55.922][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:55.924][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:55.925][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:02:55.926][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:02:55.928][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:55.929][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:55.930][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:02:55.931][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:02:55.932][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:55.933][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:55.935][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:02:55.936][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:02:55.937][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:55.938][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:55.939][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:02:55.941][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:02:55.942][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:55.943][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:55.944][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:02:55.945][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:02:55.946][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:55.947][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:55.948][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:02:55.949][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:02:55.950][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:55.950][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:55.952][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:02:55.953][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:02:55.954][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:55.954][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:55.956][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:02:55.957][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:02:55.957][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:55.958][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:55.959][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:02:55.960][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:02:55.961][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:55.962][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:55.963][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:02:55.964][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:55.965][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:55.966][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:55.967][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:02:55.968][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:55.969][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:55.970][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:55.971][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:55.972][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:55.973][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:55.974][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:55.975][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:55.976][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:55.977][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:55.978][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:55.979][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:02:55.980][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:02:55.981][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:55.982][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:55.983][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:02:55.984][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:02:55.985][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:55.986][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:55.987][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:02:55.988][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:02:55.989][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:55.990][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:55.991][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:02:55.992][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:02:55.993][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:55.994][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:55.995][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:02:55.996][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:02:55.997][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:55.997][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:55.999][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:02:56.000][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:02:56.000][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:56.001][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:56.002][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:56.003][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:56.004][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:56.005][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:56.006][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:56.007][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:56.008][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:56.009][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:56.010][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:56.011][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:56.012][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:56.013][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:56.014][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:56.015][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:56.016][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:56.017][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:56.018][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:56.019][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:56.019][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:56.020][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:56.021][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:56.022][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:56.023][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:56.024][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:56.025][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:56.026][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:56.027][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:56.028][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:56.029][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:56.030][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:56.031][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:56.032][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:56.033][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:56.034][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:56.035][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:56.036][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:56.037][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:56.038][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:56.038][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:56.039][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:56.040][self$createEntryFromContent] Accession numbers: 3014.
biodb.TRACE[2025-08-30 16:02:56.041][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:56.042][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:56.043][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:56.044][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:56.045][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:56.046][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:56.047][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:56.048][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:56.049][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:56.050][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:56.051][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:56.052][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:56.053][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:56.054][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:56.054][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:56.059][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:56.060][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:56.060][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:56.061][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:02:56.062][private$loadEntries] Creating entries from ids [1]: "7567".
biodb.DEBUG[2025-08-30 16:02:56.063][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-08-30 16:02:56.065][cch$loadFileContent] Trying to load 1 files from cache: [1]: "7567".
biodb.TRACE[2025-08-30 16:02:56.066][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-08-30 16:02:56.067][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-08-30 16:02:56.068][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-30 16:02:56.085][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-08-30 16:02:56.086][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-08-30 16:02:56.087][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-08-30 16:02:56.090][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:56.090][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:56.091][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:56.095][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:56.096][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:56.097][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:56.098][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:02:56.099][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7567".
biodb.DEBUG[2025-08-30 16:02:56.102][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-08-30 16:02:56.103][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-08-30 16:02:56.104][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7567".
biodb.TRACE[2025-08-30 16:02:56.445][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7567).
biodb.DEBUG[2025-08-30 16:02:56.790][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-08-30 16:02:56.795][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/d5365299c16307afdd0b9fe7b73b123c.content"
biodb.TRACE[2025-08-30 16:02:56.802][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/d5365299c16307afdd0b9fe7b73b123c.request"
biodb.TRACE[2025-08-30 16:02:56.807][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/7567.xml"
biodb.DEBUG[2025-08-30 16:02:56.810][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-08-30 16:02:56.813][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-30 16:02:56.816][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-30 16:02:56.819][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:56.821][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:56.823][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:56.833][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:56.835][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:56.836][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:56.838][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:02:56.842][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:56.844][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:56.845][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:56.847][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:56.849][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:56.850][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:56.852][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:56.853][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:56.855][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:02:56.856][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:02:56.857][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:56.859][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:56.860][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:02:56.862][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:02:56.863][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:56.864][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:56.865][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:02:56.866][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:02:56.868][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:56.869][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:56.870][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:02:56.871][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:02:56.872][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:56.873][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:56.874][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:02:56.876][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:02:56.877][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:56.878][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:56.879][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:02:56.880][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:02:56.881][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:56.882][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:56.883][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:02:56.884][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:02:56.885][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:56.886][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:56.887][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:02:56.888][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:02:56.889][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:56.889][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:56.891][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:02:56.891][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:02:56.892][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:56.893][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:56.894][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:02:56.895][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:02:56.896][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:56.897][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:56.898][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:02:56.899][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:56.900][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:56.901][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:56.902][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:02:56.903][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:56.904][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:56.905][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:56.906][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:56.907][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:56.908][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:56.909][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:56.910][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:56.911][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:56.912][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:56.913][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:56.914][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:02:56.915][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:02:56.916][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:56.917][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:56.918][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:02:56.919][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:02:56.920][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:56.921][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:56.922][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:02:56.923][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:02:56.924][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:56.925][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:56.926][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:02:56.927][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:02:56.928][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:56.929][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:56.930][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:02:56.931][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:02:56.932][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:56.933][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:56.934][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:02:56.935][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:02:56.936][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:56.937][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:56.938][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:56.939][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:56.940][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:56.940][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:56.941][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:56.942][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:56.943][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:56.944][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:56.945][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:56.946][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:56.947][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:56.948][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:56.949][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:56.950][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:56.951][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:56.952][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:56.953][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:56.954][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:56.955][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:56.956][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:56.957][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:56.958][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:56.959][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:56.959][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:56.960][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:56.961][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:56.962][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:56.963][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:56.964][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:56.965][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:56.966][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:56.967][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:56.968][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:56.969][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:56.970][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:56.971][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:56.972][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:56.973][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:56.974][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:56.975][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:56.976][self$createEntryFromContent] Accession numbers: 7567.
biodb.TRACE[2025-08-30 16:02:56.977][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:56.978][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:56.979][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:56.980][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:56.981][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:56.982][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:56.982][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:56.983][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:56.984][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:56.985][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:56.986][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:56.987][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:56.988][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:56.989][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:56.990][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:56.994][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:56.995][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:56.996][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:56.997][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:02:56.998][private$loadEntries] Creating entries from ids [1]: "8021".
biodb.DEBUG[2025-08-30 16:02:56.999][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-08-30 16:02:57.000][cch$loadFileContent] Trying to load 1 files from cache: [1]: "8021".
biodb.TRACE[2025-08-30 16:02:57.001][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-08-30 16:02:57.002][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-08-30 16:02:57.003][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-30 16:02:57.004][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-08-30 16:02:57.005][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-08-30 16:02:57.006][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-08-30 16:02:57.009][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:57.010][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:57.011][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:57.015][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:57.016][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:57.016][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:57.017][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:02:57.018][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=8021".
biodb.DEBUG[2025-08-30 16:02:57.021][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-08-30 16:02:57.022][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-08-30 16:02:57.023][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=8021".
biodb.TRACE[2025-08-30 16:02:57.369][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=8021).
biodb.DEBUG[2025-08-30 16:02:57.725][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-08-30 16:02:57.729][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/a6017fc384c334739eec9b216fa851a5.content"
biodb.TRACE[2025-08-30 16:02:57.736][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/a6017fc384c334739eec9b216fa851a5.request"
biodb.TRACE[2025-08-30 16:02:57.742][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/8021.xml"
biodb.DEBUG[2025-08-30 16:02:57.745][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-08-30 16:02:57.748][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-30 16:02:57.750][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-30 16:02:57.753][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:57.755][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:57.757][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:57.764][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:57.765][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:57.767][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:57.768][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:02:57.771][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:57.773][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:57.774][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:57.775][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:57.777][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:57.778][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:57.779][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:57.781][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:57.782][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:02:57.783][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:02:57.784][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:57.785][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:57.787][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:02:57.788][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:02:57.789][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:57.790][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:57.791][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:02:57.792][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:02:57.793][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:57.794][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:57.796][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:02:57.797][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:02:57.798][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:57.799][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:57.800][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:02:57.801][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:02:57.802][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:57.802][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:57.804][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:02:57.805][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:02:57.806][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:57.806][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:57.807][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:02:57.808][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:02:57.809][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:57.810][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:57.811][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:02:57.812][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:02:57.813][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:57.814][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:57.815][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:02:57.816][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:02:57.817][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:57.818][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:57.819][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:02:57.820][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:57.821][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:57.822][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:57.823][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:02:57.824][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:57.825][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:57.826][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:57.827][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:57.828][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:57.829][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:57.830][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:57.831][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:57.832][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:57.833][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:57.834][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:57.835][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:02:57.836][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:02:57.837][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:57.838][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:57.839][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:02:57.840][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:02:57.841][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:57.842][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:57.843][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:02:57.844][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:02:57.845][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:57.846][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:57.847][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:02:57.848][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:02:57.849][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:57.850][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:57.851][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:02:57.852][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:02:57.853][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:57.854][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:57.855][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:02:57.856][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:02:57.857][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:57.858][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:57.870][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:57.871][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:57.872][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:57.874][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:57.875][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:57.876][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:57.877][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:57.877][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:57.878][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:57.879][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:57.880][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:57.881][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:57.882][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:57.883][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:57.884][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:57.885][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:57.886][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:57.887][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:57.888][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:57.889][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:57.890][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:57.891][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:57.891][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:57.892][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:57.893][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:57.894][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:57.895][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:57.896][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:57.897][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:57.898][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:57.899][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:57.900][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:57.901][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:57.902][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:57.903][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:57.904][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:57.905][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:57.906][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:57.907][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:57.907][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:57.908][self$createEntryFromContent] Accession numbers: 8021.
biodb.TRACE[2025-08-30 16:02:57.909][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:57.910][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:57.911][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:57.912][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:57.913][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:57.914][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:57.915][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:57.916][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:57.917][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:57.918][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:57.919][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:57.920][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:57.921][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:57.921][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:57.922][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:57.926][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:57.927][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:57.928][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:57.929][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:02:57.930][private$loadEntries] Creating entries from ids [1]: "30382".
biodb.DEBUG[2025-08-30 16:02:57.931][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-08-30 16:02:57.932][cch$loadFileContent] Trying to load 1 files from cache: [1]: "30382".
biodb.TRACE[2025-08-30 16:02:57.934][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-08-30 16:02:57.935][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-08-30 16:02:57.936][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-30 16:02:57.937][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-08-30 16:02:57.938][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-08-30 16:02:57.939][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-08-30 16:02:57.941][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:57.942][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:57.943][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:57.947][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:57.948][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:57.948][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:57.949][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:02:57.950][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=30382".
biodb.DEBUG[2025-08-30 16:02:57.953][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-08-30 16:02:57.954][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-08-30 16:02:57.955][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=30382".
biodb.TRACE[2025-08-30 16:02:58.293][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=30382).
biodb.DEBUG[2025-08-30 16:02:58.632][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-08-30 16:02:58.636][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/762ae1b4688e0a5ef1a1419b25f545f9.content"
biodb.TRACE[2025-08-30 16:02:58.644][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/762ae1b4688e0a5ef1a1419b25f545f9.request"
biodb.TRACE[2025-08-30 16:02:58.649][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/30382.xml"
biodb.DEBUG[2025-08-30 16:02:58.652][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-08-30 16:02:58.655][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-30 16:02:58.658][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-30 16:02:58.661][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:58.663][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:58.665][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:58.675][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:58.677][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:58.678][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:58.680][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:02:58.684][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:58.686][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:58.687][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:58.689][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:58.691][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:58.692][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:58.694][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:58.695][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:58.697][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:02:58.698][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:02:58.700][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:58.701][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:58.702][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:02:58.704][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:02:58.705][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:58.706][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:58.708][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:02:58.709][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:02:58.710][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:58.711][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:58.712][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:02:58.714][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:02:58.715][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:58.716][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:58.717][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:02:58.718][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:02:58.719][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:58.720][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:58.721][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:02:58.722][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:02:58.723][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:58.724][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:58.725][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:02:58.726][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:02:58.727][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:58.728][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:58.729][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:02:58.730][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:02:58.731][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:58.732][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:58.733][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:02:58.734][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:02:58.735][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:58.736][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:58.737][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:02:58.738][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:58.739][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:58.740][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:58.741][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:02:58.742][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:58.743][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:58.744][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:58.745][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:58.746][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:58.747][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:58.748][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:58.749][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:58.750][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:58.751][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:58.752][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:58.753][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:02:58.754][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:02:58.755][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:58.756][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:58.757][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:02:58.758][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:02:58.759][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:58.760][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:58.761][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:02:58.762][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:02:58.763][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:58.764][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:58.765][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:02:58.766][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:02:58.767][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:58.767][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:58.768][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:02:58.769][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:02:58.770][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:58.771][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:58.772][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:02:58.773][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:02:58.774][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:58.775][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:58.776][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:58.777][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:58.778][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:58.779][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:58.780][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:58.781][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:58.782][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:58.783][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:58.784][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:58.785][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:58.786][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:58.787][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:58.788][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:58.789][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:58.790][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:58.790][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:58.791][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:58.792][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:58.793][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:58.794][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:58.795][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:58.796][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:58.797][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:58.798][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:58.799][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:58.800][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:58.801][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:58.802][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:58.803][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:58.804][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:58.805][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:58.806][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:58.807][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:58.808][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:58.809][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:58.810][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:58.810][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:58.811][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:58.812][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:58.813][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:58.814][self$createEntryFromContent] Accession numbers: 30382.
biodb.TRACE[2025-08-30 16:02:58.815][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:58.816][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:58.817][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:58.818][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:58.819][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:58.820][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:58.821][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:58.822][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:58.823][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:58.824][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:58.825][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:58.826][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:58.827][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-08-30 16:02:58.828][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:58.829][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:58.830][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:58.834][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:58.835][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:58.836][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:58.837][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:02:58.838][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:58.839][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:58.840][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:58.841][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:58.842][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:58.843][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:58.844][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:58.845][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:58.846][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:02:58.846][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:02:58.847][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:02:58.848][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:02:58.849][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:02:58.850][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:58.851][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:58.852][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:58.853][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:58.854][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:58.855][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:58.856][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:58.857][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:58.858][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:02:58.859][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:02:58.860][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:58.861][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:58.862][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:58.862][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:58.863][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-30 16:02:58.864][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:58.865][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:58.866][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:58.867][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:58.868][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:58.869][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:58.870][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:58.871][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:58.872][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:58.873][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:58.874][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:58.875][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:58.876][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [3014].
biodb.DEBUG[2025-08-30 16:02:58.877][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:58.878][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:58.879][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:58.883][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:58.884][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:58.885][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:58.886][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:02:58.887][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:58.888][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:58.889][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:58.890][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:58.891][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:58.892][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:58.893][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:58.894][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:58.894][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:02:58.895][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:02:58.896][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:02:58.897][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:02:58.898][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:02:58.899][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:58.900][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:58.901][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:58.902][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:58.903][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:58.904][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:58.905][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:58.914][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:58.916][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:02:58.917][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:02:58.918][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:58.919][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:58.920][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:58.921][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:58.922][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-30 16:02:58.923][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:58.924][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:58.925][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:58.925][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:58.926][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:58.927][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:58.928][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:58.929][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:58.930][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:58.931][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:58.932][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:58.933][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:58.934][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [8021].
biodb.DEBUG[2025-08-30 16:02:58.935][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:58.936][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:58.937][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:58.941][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:58.942][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:58.943][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:58.944][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:02:58.945][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:58.946][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:58.947][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:58.948][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:58.949][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:58.950][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:58.951][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:58.952][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:58.953][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:02:58.954][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:02:58.954][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:02:58.955][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:02:58.956][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:02:58.957][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:58.958][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:58.959][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:58.960][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:58.961][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:58.962][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:58.963][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:58.964][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:58.965][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:02:58.966][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:02:58.966][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:58.967][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:58.968][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:58.969][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:58.970][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-30 16:02:58.971][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:58.972][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:58.973][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:58.974][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:58.975][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:58.976][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:58.977][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:58.978][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:58.979][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:58.980][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:58.980][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:58.981][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:58.983][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [30382].
biodb.DEBUG[2025-08-30 16:02:58.984][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-08-30 16:02:58.985][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2025-08-30 16:02:58.986][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:58.987][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:58.988][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:58.992][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:58.993][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:58.994][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:58.995][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:02:58.997][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=480.4*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-08-30 16:02:59.000][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-08-30 16:02:59.001][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-08-30 16:02:59.003][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=480.4%2A&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.TRACE[2025-08-30 16:02:59.339][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=480.4%2A&searchCategory=MASS&maximumResults=0&starsCategory=ALL).
biodb.DEBUG[2025-08-30 16:02:59.685][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2025-08-30 16:02:59.690][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/152225e020c3e5947a0f5a90f021cee7.content"
biodb.TRACE[2025-08-30 16:02:59.698][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/152225e020c3e5947a0f5a90f021cee7.request"
biodb.DEBUG[2025-08-30 16:02:59.705][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:59.708][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:59.710][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:59.720][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:59.722][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:59.724][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:59.726][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:02:59.728][private$loadEntries] Creating entries from ids [1]: "9710".
biodb.DEBUG[2025-08-30 16:02:59.730][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-08-30 16:02:59.733][cch$loadFileContent] Trying to load 1 files from cache: [1]: "9710".
biodb.TRACE[2025-08-30 16:02:59.735][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-08-30 16:02:59.737][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-08-30 16:02:59.739][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-30 16:02:59.740][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-08-30 16:02:59.742][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-08-30 16:02:59.744][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-08-30 16:02:59.747][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:59.749][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:59.750][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:59.755][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:59.757][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:59.758][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:59.759][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:02:59.760][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=9710".
biodb.DEBUG[2025-08-30 16:02:59.763][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-08-30 16:02:59.764][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-08-30 16:02:59.766][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=9710".
biodb.TRACE[2025-08-30 16:03:00.104][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=9710).
biodb.DEBUG[2025-08-30 16:03:00.447][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-08-30 16:03:00.452][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b7c920ea46a15bb7175f778579142c91.content"
biodb.TRACE[2025-08-30 16:03:00.459][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b7c920ea46a15bb7175f778579142c91.request"
biodb.TRACE[2025-08-30 16:03:00.464][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/9710.xml"
biodb.DEBUG[2025-08-30 16:03:00.468][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-08-30 16:03:00.470][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-30 16:03:00.473][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-30 16:03:00.477][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:00.479][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:00.481][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:00.490][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:00.492][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:00.493][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:00.495][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:00.499][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:00.501][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:00.503][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:00.504][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:00.506][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:00.508][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:00.509][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:00.510][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:00.512][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:03:00.513][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:03:00.515][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:00.516][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:00.517][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:03:00.519][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:03:00.520][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:00.521][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:00.522][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:03:00.524][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:03:00.525][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:00.526][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:00.527][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:03:00.528][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:03:00.529][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:00.530][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:00.531][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:03:00.533][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:03:00.534][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:00.535][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:00.536][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:03:00.537][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:03:00.538][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:00.539][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:00.540][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:03:00.541][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:03:00.542][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:00.542][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:00.544][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:03:00.545][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:03:00.546][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:00.546][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:00.547][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:03:00.548][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:03:00.549][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:00.550][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:00.552][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:03:00.553][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:00.553][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:00.554][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:00.555][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:03:00.556][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:00.557][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:00.558][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:00.559][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:00.560][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:00.561][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:00.562][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:00.563][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:00.564][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:00.565][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:00.566][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:00.567][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:03:00.568][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:03:00.569][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:00.570][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:00.571][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:03:00.572][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:03:00.573][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:00.574][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:00.575][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:03:00.576][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:03:00.577][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:00.578][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:00.579][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:03:00.580][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:03:00.581][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:00.582][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:00.583][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:03:00.584][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:03:00.585][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:00.586][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:00.587][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:03:00.588][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:03:00.589][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:00.589][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:00.591][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:00.592][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:00.592][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:00.593][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:00.594][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:00.595][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:00.596][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:00.597][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:00.598][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:00.599][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:00.600][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:00.601][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:00.602][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:00.603][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:00.604][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:00.605][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:00.606][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:00.607][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:00.608][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:00.608][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:00.609][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:00.610][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:00.611][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:00.612][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:00.613][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:00.614][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:00.615][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:00.616][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:00.617][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:00.618][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:00.619][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:00.620][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:00.621][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:00.622][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:00.623][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:00.624][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:00.625][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:00.626][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:00.626][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:00.627][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:00.628][self$createEntryFromContent] Accession numbers: 9710.
biodb.TRACE[2025-08-30 16:03:00.629][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:00.630][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:00.631][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:00.632][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:00.633][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:00.634][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:00.635][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:00.636][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:00.637][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:00.638][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:00.639][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:00.640][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:00.641][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:00.642][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:00.642][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:00.647][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:00.647][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:00.648][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:00.649][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:03:00.650][private$loadEntries] Creating entries from ids [1]: "65530".
biodb.DEBUG[2025-08-30 16:03:00.651][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-08-30 16:03:00.653][cch$loadFileContent] Trying to load 1 files from cache: [1]: "65530".
biodb.TRACE[2025-08-30 16:03:00.654][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-08-30 16:03:00.655][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-08-30 16:03:00.656][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-30 16:03:00.657][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-08-30 16:03:00.658][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-08-30 16:03:00.659][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-08-30 16:03:00.661][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:00.662][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:00.663][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:00.667][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:00.668][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:00.669][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:00.680][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:03:00.682][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=65530".
biodb.DEBUG[2025-08-30 16:03:00.685][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-08-30 16:03:00.686][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-08-30 16:03:00.687][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=65530".
biodb.TRACE[2025-08-30 16:03:01.034][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=65530).
biodb.DEBUG[2025-08-30 16:03:01.401][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-08-30 16:03:01.406][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/bb7ff6c0bdfa280406af23f96ee06f80.content"
biodb.TRACE[2025-08-30 16:03:01.413][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/bb7ff6c0bdfa280406af23f96ee06f80.request"
biodb.TRACE[2025-08-30 16:03:01.418][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/65530.xml"
biodb.DEBUG[2025-08-30 16:03:01.421][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-08-30 16:03:01.424][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-30 16:03:01.427][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-30 16:03:01.430][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:01.432][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:01.435][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:01.444][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:01.446][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:01.447][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:01.449][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:01.453][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:01.455][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:01.456][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:01.458][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:01.460][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:01.461][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:01.463][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:01.464][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:01.466][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:03:01.467][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:03:01.468][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:01.470][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:01.471][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:03:01.473][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:03:01.474][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:01.475][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:01.476][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:03:01.477][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:03:01.479][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:01.480][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:01.481][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:03:01.482][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:03:01.483][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:01.484][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:01.485][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:03:01.486][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:03:01.487][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:01.488][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:01.490][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:03:01.491][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:03:01.492][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:01.493][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:01.494][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:03:01.495][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:03:01.495][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:01.496][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:01.497][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:03:01.498][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:03:01.499][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:01.500][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:01.501][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:03:01.502][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:03:01.503][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:01.504][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:01.505][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:03:01.506][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:01.507][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:01.508][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:01.509][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:03:01.510][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:01.511][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:01.512][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:01.513][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:01.514][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:01.515][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:01.516][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:01.517][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:01.518][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:01.519][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:01.520][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:01.521][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:03:01.522][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:03:01.523][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:01.523][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:01.525][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:03:01.526][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:03:01.527][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:01.528][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:01.529][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:03:01.530][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:03:01.531][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:01.531][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:01.533][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:03:01.534][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:03:01.534][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:01.535][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:01.536][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:03:01.537][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:03:01.538][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:01.539][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:01.540][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:03:01.541][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:03:01.542][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:01.543][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:01.544][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:01.545][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:01.546][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:01.547][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:01.548][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:01.549][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:01.550][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:01.551][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:01.552][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:01.553][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:01.554][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:01.555][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:01.556][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:01.557][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:01.558][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:01.559][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:01.560][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:01.561][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:01.561][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:01.562][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:01.563][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:01.564][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:01.565][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:01.566][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:01.567][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:01.568][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:01.569][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:01.570][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:01.571][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:01.572][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:01.573][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:01.574][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:01.575][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:01.576][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:01.577][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:01.578][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:01.579][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:01.580][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:01.581][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:01.581][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:01.582][self$createEntryFromContent] Accession numbers: 65530.
biodb.TRACE[2025-08-30 16:03:01.583][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:01.584][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:01.585][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:01.586][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:01.587][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:01.588][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:01.589][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:01.590][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:01.591][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:01.592][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:01.593][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:01.594][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:01.595][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:01.596][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:01.596][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:01.601][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:01.602][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:01.602][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:01.603][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:03:01.604][private$loadEntries] Creating entries from ids [1]: "72338".
biodb.DEBUG[2025-08-30 16:03:01.605][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-08-30 16:03:01.607][cch$loadFileContent] Trying to load 1 files from cache: [1]: "72338".
biodb.TRACE[2025-08-30 16:03:01.608][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-08-30 16:03:01.609][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-08-30 16:03:01.610][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-30 16:03:01.611][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-08-30 16:03:01.612][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-08-30 16:03:01.613][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-08-30 16:03:01.615][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:01.616][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:01.617][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:01.621][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:01.622][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:01.623][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:01.624][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:03:01.625][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=72338".
biodb.DEBUG[2025-08-30 16:03:01.627][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-08-30 16:03:01.628][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-08-30 16:03:01.630][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=72338".
biodb.TRACE[2025-08-30 16:03:01.974][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=72338).
biodb.DEBUG[2025-08-30 16:03:02.354][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-08-30 16:03:02.359][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/8e64dda61e0a44a21c5b0eb3609a4a7b.content"
biodb.TRACE[2025-08-30 16:03:02.366][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/8e64dda61e0a44a21c5b0eb3609a4a7b.request"
biodb.TRACE[2025-08-30 16:03:02.372][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/72338.xml"
biodb.DEBUG[2025-08-30 16:03:02.375][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-08-30 16:03:02.377][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-30 16:03:02.380][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-30 16:03:02.384][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:02.386][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:02.388][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:02.397][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:02.399][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:02.401][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:02.402][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:02.406][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:02.408][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:02.409][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:02.411][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:02.413][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:02.414][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:02.416][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:02.417][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:02.419][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:03:02.420][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:03:02.421][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:02.423][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:02.424][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:03:02.426][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:03:02.427][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:02.428][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:02.429][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:03:02.431][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:03:02.432][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:02.433][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:02.434][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:03:02.435][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:03:02.436][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:02.437][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:02.439][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:03:02.440][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:03:02.441][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:02.442][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:02.443][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:03:02.444][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:03:02.445][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:02.446][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:02.447][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:03:02.448][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:03:02.449][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:02.450][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:02.451][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:03:02.452][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:03:02.453][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:02.454][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:02.455][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:03:02.456][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:03:02.457][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:02.457][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:02.459][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:03:02.460][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:02.461][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:02.461][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:02.463][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:03:02.464][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:02.465][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:02.465][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:02.467][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:02.468][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:02.468][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:02.469][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:02.470][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:02.471][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:02.472][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:02.473][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:02.474][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:03:02.475][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:03:02.476][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:02.477][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:02.478][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:03:02.479][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:03:02.480][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:02.481][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:02.482][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:03:02.483][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:03:02.484][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:02.485][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:02.486][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:03:02.487][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:03:02.488][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:02.489][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:02.490][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:03:02.491][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:03:02.492][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:02.493][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:02.494][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:03:02.495][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:03:02.496][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:02.497][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:02.498][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:02.499][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:02.500][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:02.501][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:02.502][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:02.503][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:02.504][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:02.504][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:02.505][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:02.506][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:02.507][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:02.508][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:02.509][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:02.510][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:02.511][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:02.512][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:02.513][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:02.525][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:02.526][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:02.527][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:02.528][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:02.530][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:02.530][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:02.531][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:02.532][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:02.533][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:02.534][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:02.535][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:02.536][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:02.537][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:02.538][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:02.539][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:02.540][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:02.541][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:02.542][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:02.543][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:02.544][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:02.545][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:02.545][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:02.546][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:02.547][self$createEntryFromContent] Accession numbers: 72338.
biodb.TRACE[2025-08-30 16:03:02.548][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:02.549][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:02.550][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:02.551][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:02.552][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:02.553][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:02.554][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:02.555][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:02.556][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:02.557][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:02.558][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:02.559][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:02.559][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:02.560][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:02.561][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:02.565][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:02.566][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:02.567][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:02.568][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:03:02.569][private$loadEntries] Creating entries from ids [1]: "77926".
biodb.DEBUG[2025-08-30 16:03:02.570][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-08-30 16:03:02.571][cch$loadFileContent] Trying to load 1 files from cache: [1]: "77926".
biodb.TRACE[2025-08-30 16:03:02.572][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-08-30 16:03:02.573][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-08-30 16:03:02.574][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-30 16:03:02.575][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-08-30 16:03:02.576][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-08-30 16:03:02.577][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-08-30 16:03:02.580][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:02.581][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:02.581][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:02.585][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:02.586][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:02.587][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:02.588][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:03:02.589][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=77926".
biodb.DEBUG[2025-08-30 16:03:02.591][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-08-30 16:03:02.592][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-08-30 16:03:02.594][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=77926".
biodb.TRACE[2025-08-30 16:03:02.927][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=77926).
biodb.DEBUG[2025-08-30 16:03:03.269][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-08-30 16:03:03.273][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/9ad4fcb4fcba98dcbec5ee6292352f7b.content"
biodb.TRACE[2025-08-30 16:03:03.280][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/9ad4fcb4fcba98dcbec5ee6292352f7b.request"
biodb.TRACE[2025-08-30 16:03:03.286][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/77926.xml"
biodb.DEBUG[2025-08-30 16:03:03.289][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-08-30 16:03:03.292][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-30 16:03:03.294][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-30 16:03:03.298][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:03.300][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:03.302][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:03.311][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:03.313][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:03.314][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:03.316][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:03.319][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:03.321][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:03.323][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:03.324][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:03.326][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:03.328][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:03.329][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:03.330][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:03.332][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:03:03.333][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:03:03.334][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:03.336][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:03.337][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:03:03.338][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:03:03.340][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:03.341][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:03.342][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:03:03.343][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:03:03.344][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:03.345][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:03.347][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:03:03.348][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:03:03.349][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:03.350][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:03.351][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:03:03.352][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:03:03.353][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:03.354][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:03.355][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:03:03.356][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:03:03.357][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:03.358][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:03.359][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:03:03.360][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:03:03.361][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:03.362][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:03.363][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:03:03.364][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:03:03.365][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:03.366][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:03.367][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:03:03.368][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:03:03.369][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:03.370][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:03.371][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:03:03.372][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:03.373][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:03.374][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:03.375][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:03:03.376][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:03.377][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:03.378][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:03.379][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:03.380][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:03.381][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:03.382][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:03.383][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:03.384][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:03.385][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:03.386][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:03.387][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:03:03.388][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:03:03.389][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:03.390][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:03.391][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:03:03.392][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:03:03.393][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:03.394][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:03.395][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:03:03.396][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:03:03.397][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:03.398][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:03.399][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:03:03.400][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:03:03.401][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:03.402][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:03.403][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:03:03.404][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:03:03.404][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:03.405][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:03.407][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:03:03.408][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:03:03.408][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:03.409][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:03.410][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:03.411][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:03.412][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:03.413][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:03.414][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:03.415][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:03.416][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:03.417][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:03.418][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:03.419][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:03.420][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:03.421][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:03.422][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:03.423][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:03.424][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:03.425][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:03.426][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:03.427][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:03.427][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:03.428][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:03.429][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:03.430][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:03.431][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:03.432][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:03.433][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:03.434][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:03.435][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:03.436][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:03.437][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:03.438][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:03.439][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:03.440][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:03.441][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:03.442][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:03.443][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:03.444][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:03.445][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:03.446][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:03.447][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:03.447][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:03.448][self$createEntryFromContent] Accession numbers: 77926.
biodb.TRACE[2025-08-30 16:03:03.449][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:03.450][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:03.451][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:03.452][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:03.453][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:03.454][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:03.455][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:03.456][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:03.457][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:03.458][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:03.459][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:03.460][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:03.461][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:03.462][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:03.462][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:03.467][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:03.468][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:03.468][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:03.469][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:03:03.470][private$loadEntries] Creating entries from ids [1]: "82369".
biodb.DEBUG[2025-08-30 16:03:03.471][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-08-30 16:03:03.473][cch$loadFileContent] Trying to load 1 files from cache: [1]: "82369".
biodb.TRACE[2025-08-30 16:03:03.474][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-08-30 16:03:03.475][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-08-30 16:03:03.476][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-30 16:03:03.477][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-08-30 16:03:03.478][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-08-30 16:03:03.479][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-08-30 16:03:03.481][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:03.482][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:03.483][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:03.487][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:03.488][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:03.489][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:03.490][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:03:03.491][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=82369".
biodb.DEBUG[2025-08-30 16:03:03.493][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-08-30 16:03:03.494][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-08-30 16:03:03.496][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=82369".
biodb.TRACE[2025-08-30 16:03:03.842][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=82369).
biodb.DEBUG[2025-08-30 16:03:04.183][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-08-30 16:03:04.187][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/141011223a89b45316c20d1fd91b47fd.content"
biodb.TRACE[2025-08-30 16:03:04.194][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/141011223a89b45316c20d1fd91b47fd.request"
biodb.TRACE[2025-08-30 16:03:04.200][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/82369.xml"
biodb.DEBUG[2025-08-30 16:03:04.203][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-08-30 16:03:04.206][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-30 16:03:04.208][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-30 16:03:04.212][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:04.214][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:04.216][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:04.225][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:04.227][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:04.229][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:04.231][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:04.235][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:04.236][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:04.238][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:04.239][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:04.241][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:04.243][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:04.244][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:04.246][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:04.247][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:03:04.249][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:03:04.250][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:04.251][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:04.253][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:03:04.254][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:03:04.255][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:04.257][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:04.258][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:03:04.259][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:03:04.260][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:04.261][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:04.263][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:03:04.264][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:03:04.265][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:04.266][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:04.267][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:03:04.268][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:03:04.269][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:04.270][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:04.271][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:03:04.272][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:03:04.273][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:04.274][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:04.275][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:03:04.276][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:03:04.277][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:04.289][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:04.291][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:03:04.292][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:03:04.293][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:04.294][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:04.295][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:03:04.296][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:03:04.297][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:04.298][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:04.299][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:03:04.300][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:03:04.301][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:04.302][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:04.303][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:03:04.304][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:04.304][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:04.305][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:04.306][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:03:04.307][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:04.308][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:04.309][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:04.310][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:04.311][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:04.312][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:04.313][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:04.314][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:04.315][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:04.316][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:04.317][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:04.318][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:03:04.319][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:03:04.320][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:04.321][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:04.322][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:03:04.323][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:03:04.324][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:04.325][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:04.326][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:03:04.327][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:03:04.328][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:04.329][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:04.330][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:03:04.331][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:03:04.332][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:04.332][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:04.333][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:03:04.334][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:03:04.335][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:04.336][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:04.337][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:03:04.338][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:03:04.339][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:04.340][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:04.341][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:04.342][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:04.343][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:04.344][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:04.345][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:04.346][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:04.347][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:04.348][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:04.349][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:04.350][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:04.351][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:04.351][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:04.352][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:04.353][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:04.354][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:04.355][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:04.356][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:04.357][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:04.358][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:04.359][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:04.360][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:04.361][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:04.362][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:04.363][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:04.364][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:04.365][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:04.365][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:04.366][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:04.367][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:04.368][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:04.369][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:04.370][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:04.371][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:04.372][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:04.373][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:04.374][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:04.375][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:04.376][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:04.377][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:04.378][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:04.379][self$createEntryFromContent] Accession numbers: 82369.
biodb.TRACE[2025-08-30 16:03:04.380][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:04.381][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:04.382][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:04.383][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:04.384][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:04.385][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:04.386][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:04.386][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:04.387][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:04.388][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:04.389][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:04.390][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:04.391][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:04.392][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:04.393][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:04.397][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:04.398][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:04.399][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:04.400][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:03:04.401][private$loadEntries] Creating entries from ids [1]: "90204".
biodb.DEBUG[2025-08-30 16:03:04.402][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-08-30 16:03:04.403][cch$loadFileContent] Trying to load 1 files from cache: [1]: "90204".
biodb.TRACE[2025-08-30 16:03:04.405][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-08-30 16:03:04.406][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-08-30 16:03:04.407][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-30 16:03:04.408][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-08-30 16:03:04.409][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-08-30 16:03:04.410][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-08-30 16:03:04.412][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:04.413][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:04.414][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:04.418][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:04.419][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:04.420][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:04.421][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:03:04.422][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=90204".
biodb.DEBUG[2025-08-30 16:03:04.424][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-08-30 16:03:04.425][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-08-30 16:03:04.427][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=90204".
biodb.TRACE[2025-08-30 16:03:04.770][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=90204).
biodb.DEBUG[2025-08-30 16:03:05.112][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-08-30 16:03:05.117][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/bd50d349ae7e6e2bbccffc7e4e5f18de.content"
biodb.TRACE[2025-08-30 16:03:05.124][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/bd50d349ae7e6e2bbccffc7e4e5f18de.request"
biodb.TRACE[2025-08-30 16:03:05.130][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/90204.xml"
biodb.DEBUG[2025-08-30 16:03:05.133][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-08-30 16:03:05.135][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-30 16:03:05.138][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-30 16:03:05.142][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:05.144][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:05.146][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:05.155][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:05.157][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:05.158][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:05.160][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:05.164][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:05.166][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:05.168][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:05.169][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:05.171][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:05.173][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:05.174][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:05.175][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:05.177][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:03:05.178][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:03:05.180][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:05.181][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:05.183][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:03:05.184][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:03:05.185][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:05.186][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:05.187][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:03:05.189][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:03:05.190][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:05.191][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:05.192][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:03:05.193][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:03:05.195][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:05.196][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:05.197][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:03:05.198][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:03:05.199][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:05.200][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:05.201][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:03:05.202][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:03:05.203][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:05.204][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:05.205][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:03:05.206][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:03:05.207][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:05.208][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:05.209][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:03:05.210][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:03:05.211][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:05.212][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:05.213][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:03:05.214][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:03:05.215][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:05.216][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:05.217][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:03:05.218][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:05.219][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:05.220][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:05.221][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:03:05.222][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:05.223][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:05.224][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:05.225][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:05.226][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:05.227][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:05.227][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:05.229][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:05.230][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:05.231][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:05.231][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:05.232][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:03:05.233][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:03:05.234][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:05.235][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:05.237][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:03:05.238][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:03:05.238][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:05.239][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:05.240][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:03:05.241][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:03:05.242][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:05.243][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:05.244][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:03:05.245][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:03:05.246][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:05.247][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:05.248][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:03:05.249][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:03:05.250][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:05.251][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:05.252][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:03:05.253][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:03:05.254][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:05.255][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:05.256][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:05.257][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:05.258][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:05.259][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:05.260][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:05.261][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:05.262][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:05.263][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:05.264][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:05.265][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:05.266][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:05.266][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:05.267][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:05.268][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:05.269][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:05.270][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:05.271][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:05.272][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:05.273][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:05.274][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:05.275][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:05.276][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:05.277][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:05.278][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:05.279][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:05.280][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:05.281][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:05.282][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:05.283][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:05.284][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:05.285][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:05.285][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:05.286][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:05.287][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:05.288][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:05.289][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:05.290][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:05.291][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:05.292][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:05.293][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:05.294][self$createEntryFromContent] Accession numbers: 90204.
biodb.TRACE[2025-08-30 16:03:05.295][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:05.296][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:05.297][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:05.298][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:05.299][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:05.300][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:05.301][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:05.302][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:05.303][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:05.304][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:05.304][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:05.305][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:05.306][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:05.307][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:05.308][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:05.312][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:05.313][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:05.314][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:05.315][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:03:05.316][private$loadEntries] Creating entries from ids [1]: "132793".
biodb.DEBUG[2025-08-30 16:03:05.317][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-08-30 16:03:05.318][cch$loadFileContent] Trying to load 1 files from cache: [1]: "132793".
biodb.TRACE[2025-08-30 16:03:05.320][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-08-30 16:03:05.321][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-08-30 16:03:05.322][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-30 16:03:05.323][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-08-30 16:03:05.324][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-08-30 16:03:05.325][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-08-30 16:03:05.327][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:05.328][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:05.329][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:05.342][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:05.344][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:05.345][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:05.346][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:03:05.347][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=132793".
biodb.DEBUG[2025-08-30 16:03:05.350][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-08-30 16:03:05.351][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-08-30 16:03:05.352][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=132793".
biodb.TRACE[2025-08-30 16:03:05.697][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=132793).
biodb.DEBUG[2025-08-30 16:03:06.053][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-08-30 16:03:06.058][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/a797bec3bbec3ca7a5b4b96140b735a3.content"
biodb.TRACE[2025-08-30 16:03:06.065][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/a797bec3bbec3ca7a5b4b96140b735a3.request"
biodb.TRACE[2025-08-30 16:03:06.071][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/132793.xml"
biodb.DEBUG[2025-08-30 16:03:06.074][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-08-30 16:03:06.077][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-30 16:03:06.079][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-30 16:03:06.083][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:06.085][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:06.087][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:06.096][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:06.098][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:06.100][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:06.102][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:06.105][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:06.107][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:06.109][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:06.110][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:06.112][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:06.114][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:06.115][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:06.116][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:06.118][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:03:06.119][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:03:06.121][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:06.122][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:06.124][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:03:06.125][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:03:06.126][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:06.127][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:06.129][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:03:06.130][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:03:06.131][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:06.132][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:06.133][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:03:06.134][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:03:06.135][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:06.137][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:06.138][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:03:06.139][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:03:06.140][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:06.141][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:06.142][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:03:06.143][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:03:06.144][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:06.145][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:06.146][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:03:06.147][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:03:06.148][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:06.149][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:06.150][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:03:06.151][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:03:06.152][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:06.153][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:06.154][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:03:06.155][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:03:06.156][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:06.156][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:06.158][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:03:06.159][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:03:06.159][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:06.160][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:06.161][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:03:06.162][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:06.163][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:06.164][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:06.165][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:03:06.166][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:06.167][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:06.168][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:06.169][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:06.170][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:06.171][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:06.172][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:06.173][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:06.174][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:06.175][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:06.176][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:06.177][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:03:06.178][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:03:06.179][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:06.180][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:06.181][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:03:06.182][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:03:06.183][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:06.184][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:06.185][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:03:06.186][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:03:06.187][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:06.188][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:06.189][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:03:06.190][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:03:06.191][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:06.192][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:06.193][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:03:06.194][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:03:06.195][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:06.195][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:06.197][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:03:06.198][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:03:06.199][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:06.199][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:06.200][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:06.201][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:06.202][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:06.203][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:06.204][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:06.205][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:06.206][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:06.207][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:06.208][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:06.209][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:06.210][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:06.211][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:06.212][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:06.213][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:06.214][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:06.215][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:06.216][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:06.217][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:06.218][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:06.219][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:06.220][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:06.221][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:06.221][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:06.222][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:06.223][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:06.224][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:06.225][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:06.226][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:06.227][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:06.228][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:06.229][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:06.230][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:06.231][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:06.232][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:06.233][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:06.234][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:06.235][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:06.236][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:06.237][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:06.238][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:06.239][self$createEntryFromContent] Accession numbers: 132793.
biodb.TRACE[2025-08-30 16:03:06.240][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:06.241][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:06.242][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:06.243][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:06.243][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:06.244][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:06.245][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:06.246][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:06.247][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:06.248][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:06.249][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:06.250][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:06.251][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-08-30 16:03:06.253][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:06.254][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:06.254][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:06.259][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:06.259][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:06.260][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:06.261][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:06.262][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:06.263][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:06.264][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:06.265][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:06.266][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:06.267][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:06.268][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:06.269][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:06.270][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:06.271][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:03:06.272][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:03:06.273][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:03:06.273][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:06.274][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:06.275][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:06.276][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:06.277][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:06.278][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:06.279][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:06.280][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:06.281][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:06.282][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:06.283][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:06.284][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:06.285][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:06.286][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:06.287][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:06.288][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-30 16:03:06.289][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:06.290][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:06.290][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:06.291][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:06.292][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:06.293][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:06.294][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:06.295][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:06.296][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:06.297][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:06.298][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:06.299][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:06.300][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [65530].
biodb.DEBUG[2025-08-30 16:03:06.301][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:06.302][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:06.303][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:06.307][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:06.308][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:06.309][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:06.310][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:06.311][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:06.312][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:06.313][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:06.313][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:06.314][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:06.315][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:06.316][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:06.317][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:06.318][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:06.319][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:03:06.320][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:03:06.321][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:03:06.322][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:06.323][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:06.324][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:06.325][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:06.326][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:06.327][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:06.328][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:06.328][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:06.329][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:06.330][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:06.331][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:06.332][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:06.333][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:06.334][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:06.335][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:06.336][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-30 16:03:06.337][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:06.338][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:06.339][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:06.340][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:06.341][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:06.342][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:06.342][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:06.343][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:06.344][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:06.345][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:06.346][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:06.347][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:06.348][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [90204].
biodb.DEBUG[2025-08-30 16:03:06.349][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:06.350][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:06.351][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:06.355][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:06.356][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:06.357][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:06.358][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:06.359][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:06.360][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:06.361][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:06.362][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:06.363][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:06.364][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:06.365][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:06.365][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:06.366][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:06.367][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:03:06.368][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:03:06.369][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:03:06.370][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:06.371][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:06.372][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:06.373][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:06.374][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:06.375][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:06.376][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:06.377][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:06.377][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:06.378][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:06.379][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:06.380][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:06.381][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:06.382][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:06.383][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:06.384][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-30 16:03:06.385][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:06.386][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:06.387][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:06.388][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:06.389][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:06.390][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:06.391][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:06.392][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:06.392][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:06.394][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:06.394][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:06.395][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:06.397][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [132793].
biodb.DEBUG[2025-08-30 16:03:06.398][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-08-30 16:03:06.403][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2025-08-30 16:03:06.409][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:06.410][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:06.411][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:06.415][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:06.416][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:06.417][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:06.418][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:03:06.420][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.1*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-08-30 16:03:06.423][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-08-30 16:03:06.424][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-08-30 16:03:06.426][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.1%2A&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.TRACE[2025-08-30 16:03:06.761][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.1%2A&searchCategory=MASS&maximumResults=0&starsCategory=ALL).
biodb.DEBUG[2025-08-30 16:03:07.102][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2025-08-30 16:03:07.106][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/9686ce9c957a368dd8f5b4cc9c5b15b3.content"
biodb.TRACE[2025-08-30 16:03:07.114][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/9686ce9c957a368dd8f5b4cc9c5b15b3.request"
biodb.DEBUG[2025-08-30 16:03:07.120][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:07.122][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:07.124][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:07.133][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:07.135][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:07.137][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:07.140][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:03:07.142][private$loadEntries] Creating entries from ids [1]: "131378".
biodb.DEBUG[2025-08-30 16:03:07.144][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-08-30 16:03:07.147][cch$loadFileContent] Trying to load 1 files from cache: [1]: "131378".
biodb.TRACE[2025-08-30 16:03:07.150][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-08-30 16:03:07.152][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-08-30 16:03:07.154][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-30 16:03:07.155][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-08-30 16:03:07.157][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-08-30 16:03:07.159][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-08-30 16:03:07.162][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:07.164][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:07.165][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:07.171][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:07.172][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:07.173][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:07.174][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:03:07.176][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=131378".
biodb.DEBUG[2025-08-30 16:03:07.179][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-08-30 16:03:07.180][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-08-30 16:03:07.181][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=131378".
biodb.TRACE[2025-08-30 16:03:07.521][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=131378).
biodb.DEBUG[2025-08-30 16:03:07.905][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-08-30 16:03:07.910][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/5b759b1dd2dc96585e60782e41aa0772.content"
biodb.TRACE[2025-08-30 16:03:07.917][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/5b759b1dd2dc96585e60782e41aa0772.request"
biodb.TRACE[2025-08-30 16:03:07.923][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/131378.xml"
biodb.DEBUG[2025-08-30 16:03:07.926][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-08-30 16:03:07.929][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-30 16:03:07.931][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-30 16:03:07.935][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:07.937][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:07.939][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:07.949][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:07.952][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:07.954][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:07.956][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:07.961][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:07.963][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:07.966][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:07.968][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:07.970][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:07.972][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:07.974][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:07.976][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:07.978][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:03:07.980][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:03:07.981][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:07.983][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:07.985][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:03:07.987][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:03:07.988][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:07.989][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:07.991][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:03:07.993][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:03:07.994][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:07.995][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:07.997][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:03:07.998][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:03:07.999][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:08.001][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:08.002][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:03:08.003][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:03:08.004][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:08.005][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:08.007][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:03:08.008][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:03:08.009][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:08.010][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:08.011][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:03:08.012][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:03:08.013][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:08.014][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:08.015][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:03:08.017][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:03:08.018][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:08.018][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:08.019][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:03:08.021][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:03:08.021][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:08.022][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:08.024][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:03:08.025][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:08.025][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:08.026][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:08.028][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:03:08.029][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:08.029][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:08.030][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:08.031][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:08.032][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:08.033][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:08.034][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:08.035][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:08.036][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:08.037][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:08.038][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:08.039][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:03:08.040][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:03:08.041][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:08.042][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:08.043][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:03:08.044][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:03:08.045][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:08.046][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:08.047][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:03:08.048][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:03:08.049][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:08.050][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:08.051][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:03:08.052][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:03:08.053][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:08.054][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:08.055][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:03:08.056][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:03:08.057][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:08.058][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:08.059][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:03:08.060][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:03:08.061][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:08.062][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:08.063][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:08.064][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:08.065][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:08.066][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:08.067][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:08.068][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:08.069][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:08.069][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:08.070][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:08.071][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:08.072][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:08.073][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:08.074][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:08.075][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:08.076][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:08.077][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:08.078][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:08.079][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:08.080][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:08.081][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:08.082][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:08.083][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:08.084][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:08.084][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:08.085][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:08.086][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:08.087][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:08.088][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:08.089][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:08.090][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:08.091][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:08.092][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:08.093][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:08.094][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:08.095][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:08.096][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:08.097][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:08.098][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:08.099][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:08.100][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:08.101][self$createEntryFromContent] Accession numbers: 131378.
biodb.TRACE[2025-08-30 16:03:08.102][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:08.103][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:08.104][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:08.105][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:08.105][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:08.107][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:08.107][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:08.108][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:08.109][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:08.110][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:08.111][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:08.112][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:08.113][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:08.114][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:08.115][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:08.119][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:08.120][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:08.121][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:08.122][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:03:08.123][private$loadEntries] Creating entries from ids [1]: "214202".
biodb.DEBUG[2025-08-30 16:03:08.124][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-08-30 16:03:08.125][cch$loadFileContent] Trying to load 1 files from cache: [1]: "214202".
biodb.TRACE[2025-08-30 16:03:08.126][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-08-30 16:03:08.127][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-08-30 16:03:08.128][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-30 16:03:08.129][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-08-30 16:03:08.130][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-08-30 16:03:08.131][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-08-30 16:03:08.134][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:08.135][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:08.135][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:08.139][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:08.140][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:08.141][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:08.142][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:03:08.143][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=214202".
biodb.DEBUG[2025-08-30 16:03:08.146][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-08-30 16:03:08.146][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-08-30 16:03:08.148][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=214202".
biodb.TRACE[2025-08-30 16:03:08.486][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=214202).
biodb.DEBUG[2025-08-30 16:03:08.821][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-08-30 16:03:08.826][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/cf9a3fb7c59af59e06fd510ceb170574.content"
biodb.TRACE[2025-08-30 16:03:08.833][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/cf9a3fb7c59af59e06fd510ceb170574.request"
biodb.TRACE[2025-08-30 16:03:08.838][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/214202.xml"
biodb.DEBUG[2025-08-30 16:03:08.841][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-08-30 16:03:08.844][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-30 16:03:08.847][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-30 16:03:08.850][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:08.852][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:08.855][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:08.864][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:08.866][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:08.868][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:08.869][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:08.873][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:08.875][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:08.877][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:08.878][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:08.880][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:08.882][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:08.883][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:08.884][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:08.886][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:03:08.887][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:03:08.889][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:08.890][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:08.892][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:03:08.893][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:03:08.894][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:08.895][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:08.897][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:03:08.898][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:03:08.899][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:08.900][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:08.902][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:03:08.903][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:03:08.904][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:08.905][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:08.906][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:03:08.907][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:03:08.908][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:08.909][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:08.910][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:03:08.912][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:03:08.912][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:08.913][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:08.914][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:03:08.916][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:03:08.916][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:08.917][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:08.918][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:03:08.920][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:03:08.920][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:08.921][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:08.936][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:03:08.937][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:03:08.938][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:08.939][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:08.940][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:03:08.941][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:08.942][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:08.943][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:08.944][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:03:08.945][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:08.946][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:08.947][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:08.948][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:08.949][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:08.950][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:08.951][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:08.952][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:08.953][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:08.954][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:08.955][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:08.956][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:03:08.957][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:03:08.958][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:08.959][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:08.960][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:03:08.961][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:03:08.962][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:08.963][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:08.964][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:03:08.965][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:03:08.966][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:08.966][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:08.968][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:03:08.968][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:03:08.969][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:08.970][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:08.971][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:03:08.972][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:03:08.973][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:08.974][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:08.975][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:03:08.976][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:03:08.977][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:08.978][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:08.979][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:08.980][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:08.981][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:08.982][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:08.983][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:08.984][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:08.985][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:08.986][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:08.986][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:08.987][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:08.988][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:08.989][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:08.990][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:08.991][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:08.992][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:08.993][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:08.994][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:08.995][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:08.996][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:08.997][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:08.998][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:08.999][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:09.000][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:09.000][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:09.001][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:09.002][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:09.003][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:09.004][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:09.005][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:09.006][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:09.007][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:09.008][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:09.009][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:09.010][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:09.011][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:09.012][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:09.013][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:09.014][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:09.015][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:09.016][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:09.016][self$createEntryFromContent] Accession numbers: 214202.
biodb.TRACE[2025-08-30 16:03:09.018][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:09.019][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:09.019][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:09.020][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:09.021][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:09.022][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:09.023][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:09.024][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:09.025][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:09.026][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:09.027][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:09.028][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:09.030][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.2*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-08-30 16:03:09.033][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-08-30 16:03:09.033][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-08-30 16:03:09.035][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.2%2A&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.TRACE[2025-08-30 16:03:09.378][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.2%2A&searchCategory=MASS&maximumResults=0&starsCategory=ALL).
biodb.DEBUG[2025-08-30 16:03:09.721][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2025-08-30 16:03:09.725][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/5d833e77a1be58060d0c3916a1e1b293.content"
biodb.TRACE[2025-08-30 16:03:09.733][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/5d833e77a1be58060d0c3916a1e1b293.request"
biodb.DEBUG[2025-08-30 16:03:09.739][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:09.742][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:09.744][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:09.753][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:09.755][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:09.758][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:09.760][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:03:09.762][private$loadEntries] Creating entries from ids [1]: "51836".
biodb.DEBUG[2025-08-30 16:03:09.764][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-08-30 16:03:09.767][cch$loadFileContent] Trying to load 1 files from cache: [1]: "51836".
biodb.TRACE[2025-08-30 16:03:09.770][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-08-30 16:03:09.772][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-08-30 16:03:09.773][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-30 16:03:09.775][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-08-30 16:03:09.777][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-08-30 16:03:09.779][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-08-30 16:03:09.782][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:09.784][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:09.785][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:09.791][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:09.792][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:09.793][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:09.794][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:03:09.796][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=51836".
biodb.DEBUG[2025-08-30 16:03:09.799][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-08-30 16:03:09.800][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-08-30 16:03:09.801][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=51836".
biodb.TRACE[2025-08-30 16:03:10.146][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=51836).
biodb.DEBUG[2025-08-30 16:03:10.486][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-08-30 16:03:10.491][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/1fe2079ad59bca4bc82b2cd14ed8e8a1.content"
biodb.TRACE[2025-08-30 16:03:10.498][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/1fe2079ad59bca4bc82b2cd14ed8e8a1.request"
biodb.TRACE[2025-08-30 16:03:10.504][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/51836.xml"
biodb.DEBUG[2025-08-30 16:03:10.507][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-08-30 16:03:10.510][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-30 16:03:10.512][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-30 16:03:10.516][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:10.518][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:10.520][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:10.530][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:10.532][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:10.533][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:10.535][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:10.539][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:10.541][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:10.542][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:10.544][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:10.546][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:10.547][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:10.549][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:10.550][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:10.552][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:03:10.553][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:03:10.555][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:10.556][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:10.558][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:03:10.559][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:03:10.560][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:10.561][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:10.563][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:03:10.564][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:03:10.565][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:10.566][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:10.567][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:03:10.569][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:03:10.570][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:10.571][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:10.572][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:03:10.573][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:03:10.574][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:10.575][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:10.576][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:03:10.577][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:03:10.578][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:10.579][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:10.580][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:03:10.581][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:03:10.582][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:10.583][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:10.584][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:03:10.585][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:03:10.586][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:10.587][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:10.588][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:03:10.589][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:03:10.590][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:10.591][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:10.592][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:03:10.593][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:03:10.594][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:10.595][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:10.596][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:03:10.597][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:10.598][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:10.598][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:10.600][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:03:10.601][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:10.601][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:10.602][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:10.603][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:10.604][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:10.605][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:10.606][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:10.607][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:10.608][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:10.609][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:10.610][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:10.611][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:03:10.612][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:03:10.613][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:10.614][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:10.615][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:03:10.616][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:03:10.617][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:10.618][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:10.619][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:03:10.620][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:03:10.621][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:10.622][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:10.623][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:03:10.624][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:03:10.625][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:10.626][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:10.627][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:03:10.628][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:03:10.629][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:10.630][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:10.631][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:03:10.632][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:03:10.633][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:10.634][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:10.635][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:10.636][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:10.637][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:10.638][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:10.639][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:10.640][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:10.640][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:10.641][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:10.642][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:10.643][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:10.644][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:10.645][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:10.646][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:10.647][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:10.648][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:10.649][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:10.650][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:10.651][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:10.652][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:10.653][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:10.654][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:10.655][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:10.656][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:10.657][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:10.657][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:10.658][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:10.659][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:10.660][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:10.661][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:10.662][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:10.663][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:10.664][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:10.665][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:10.666][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:10.667][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:10.668][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:10.669][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:10.670][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:10.671][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:10.672][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:10.673][self$createEntryFromContent] Accession numbers: 51836.
biodb.TRACE[2025-08-30 16:03:10.674][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:10.675][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:10.676][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:10.677][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:10.678][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:10.679][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:10.680][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:10.680][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:10.681][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:10.682][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:10.683][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:10.684][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:10.685][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:10.686][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:10.687][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:10.691][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:10.692][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:10.693][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:10.694][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:03:10.695][private$loadEntries] Creating entries from ids [1]: "51837".
biodb.DEBUG[2025-08-30 16:03:10.696][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-08-30 16:03:10.708][cch$loadFileContent] Trying to load 1 files from cache: [1]: "51837".
biodb.TRACE[2025-08-30 16:03:10.710][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-08-30 16:03:10.711][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-08-30 16:03:10.712][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-30 16:03:10.713][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-08-30 16:03:10.714][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-08-30 16:03:10.715][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-08-30 16:03:10.717][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:10.718][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:10.719][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:10.723][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:10.724][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:10.725][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:10.726][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:03:10.727][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=51837".
biodb.DEBUG[2025-08-30 16:03:10.729][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-08-30 16:03:10.730][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-08-30 16:03:10.731][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=51837".
biodb.TRACE[2025-08-30 16:03:11.071][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=51837).
biodb.DEBUG[2025-08-30 16:03:11.410][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-08-30 16:03:11.414][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/1588f004fb5de8667ae1af7433b2932e.content"
biodb.TRACE[2025-08-30 16:03:11.421][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/1588f004fb5de8667ae1af7433b2932e.request"
biodb.TRACE[2025-08-30 16:03:11.427][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/51837.xml"
biodb.DEBUG[2025-08-30 16:03:11.430][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-08-30 16:03:11.432][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-30 16:03:11.435][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-30 16:03:11.439][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:11.441][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:11.443][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:11.452][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:11.454][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:11.456][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:11.458][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:11.461][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:11.463][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:11.465][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:11.466][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:11.468][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:11.470][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:11.471][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:11.473][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:11.474][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:03:11.476][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:03:11.477][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:11.478][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:11.480][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:03:11.481][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:03:11.482][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:11.483][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:11.485][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:03:11.486][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:03:11.487][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:11.488][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:11.489][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:03:11.491][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:03:11.492][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:11.493][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:11.494][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:03:11.495][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:03:11.496][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:11.497][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:11.498][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:03:11.499][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:03:11.500][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:11.501][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:11.502][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:03:11.503][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:03:11.504][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:11.505][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:11.506][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:03:11.507][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:03:11.508][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:11.509][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:11.510][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:03:11.511][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:03:11.512][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:11.513][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:11.514][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:03:11.515][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:03:11.516][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:11.516][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:11.518][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:03:11.519][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:11.519][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:11.520][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:11.521][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:03:11.523][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:11.523][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:11.524][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:11.525][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:11.526][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:11.527][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:11.528][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:11.529][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:11.530][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:11.531][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:11.532][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:11.533][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:03:11.534][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:03:11.535][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:11.536][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:11.537][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:03:11.538][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:03:11.539][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:11.540][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:11.541][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:03:11.542][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:03:11.543][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:11.544][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:11.545][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:03:11.546][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:03:11.547][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:11.548][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:11.549][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:03:11.550][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:03:11.551][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:11.552][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:11.553][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:03:11.554][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:03:11.555][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:11.556][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:11.557][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:11.558][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:11.559][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:11.560][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:11.561][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:11.562][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:11.563][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:11.564][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:11.565][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:11.566][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:11.567][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:11.567][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:11.568][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:11.569][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:11.570][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:11.571][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:11.572][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:11.573][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:11.574][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:11.575][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:11.576][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:11.577][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:11.578][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:11.579][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:11.580][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:11.581][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:11.582][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:11.583][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:11.584][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:11.585][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:11.586][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:11.587][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:11.588][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:11.589][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:11.589][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:11.590][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:11.591][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:11.592][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:11.593][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:11.594][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:11.595][self$createEntryFromContent] Accession numbers: 51837.
biodb.TRACE[2025-08-30 16:03:11.596][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:11.597][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:11.598][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:11.599][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:11.600][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:11.601][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:11.602][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:11.603][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:11.604][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:11.605][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:11.606][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:11.607][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:11.607][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:11.608][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:11.609][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:11.613][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:11.614][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:11.615][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:11.616][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:03:11.617][private$loadEntries] Creating entries from ids [1]: "132205".
biodb.DEBUG[2025-08-30 16:03:11.618][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-08-30 16:03:11.620][cch$loadFileContent] Trying to load 1 files from cache: [1]: "132205".
biodb.TRACE[2025-08-30 16:03:11.621][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-08-30 16:03:11.622][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-08-30 16:03:11.623][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-30 16:03:11.624][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-08-30 16:03:11.625][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-08-30 16:03:11.626][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-08-30 16:03:11.628][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:11.629][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:11.630][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:11.634][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:11.635][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:11.636][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:11.636][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:03:11.638][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=132205".
biodb.DEBUG[2025-08-30 16:03:11.640][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-08-30 16:03:11.641][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-08-30 16:03:11.642][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=132205".
biodb.TRACE[2025-08-30 16:03:11.982][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=132205).
biodb.DEBUG[2025-08-30 16:03:12.319][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-08-30 16:03:12.324][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/0bfa2ac1d845d7db5b781e9a39528bb3.content"
biodb.TRACE[2025-08-30 16:03:12.331][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/0bfa2ac1d845d7db5b781e9a39528bb3.request"
biodb.TRACE[2025-08-30 16:03:12.336][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/132205.xml"
biodb.DEBUG[2025-08-30 16:03:12.340][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-08-30 16:03:12.342][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-30 16:03:12.345][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-30 16:03:12.349][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:12.351][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:12.353][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:12.362][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:12.364][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:12.366][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:12.368][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:12.371][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:12.373][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:12.375][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:12.376][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:12.378][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:12.380][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:12.381][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:12.382][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:12.384][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:03:12.386][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:03:12.387][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:12.388][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:12.390][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:03:12.391][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:03:12.392][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:12.393][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:12.395][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:03:12.396][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:03:12.397][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:12.398][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:12.399][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:03:12.401][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:03:12.402][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:12.403][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:12.404][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:03:12.405][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:03:12.406][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:12.407][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:12.408][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:03:12.409][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:03:12.410][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:12.411][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:12.412][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:03:12.413][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:03:12.414][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:12.415][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:12.416][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:03:12.417][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:03:12.418][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:12.419][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:12.420][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:03:12.421][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:03:12.422][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:12.423][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:12.424][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:03:12.425][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:12.426][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:12.427][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:12.428][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:03:12.429][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:12.430][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:12.431][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:12.432][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:12.433][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:12.434][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:12.435][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:12.436][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:12.437][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:12.438][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:12.439][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:12.440][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:03:12.441][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:03:12.442][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:12.442][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:12.444][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:03:12.445][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:03:12.446][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:12.447][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:12.448][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:03:12.449][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:03:12.449][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:12.450][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:12.451][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:03:12.452][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:03:12.453][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:12.454][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:12.455][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:03:12.468][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:03:12.469][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:12.470][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:12.471][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:03:12.472][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:03:12.473][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:12.474][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:12.475][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:12.476][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:12.477][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:12.478][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:12.479][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:12.480][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:12.481][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:12.482][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:12.483][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:12.484][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:12.485][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:12.486][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:12.486][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:12.487][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:12.488][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:12.489][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:12.490][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:12.491][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:12.492][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:12.493][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:12.494][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:12.495][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:12.496][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:12.497][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:12.498][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:12.499][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:12.500][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:12.500][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:12.502][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:12.503][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:12.503][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:12.504][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:12.505][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:12.506][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:12.507][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:12.508][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:12.509][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:12.510][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:12.511][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:12.512][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:12.513][self$createEntryFromContent] Accession numbers: 132205.
biodb.TRACE[2025-08-30 16:03:12.514][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:12.515][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:12.516][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:12.517][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:12.518][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:12.519][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:12.519][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:12.520][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:12.521][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:12.522][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:12.523][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:12.524][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:12.525][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-08-30 16:03:12.527][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:12.528][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:12.528][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:12.533][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:12.533][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:12.534][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:12.535][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:12.536][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:12.537][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:12.538][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:12.539][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:12.540][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:12.541][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:12.542][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:12.543][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:12.544][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:12.545][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:03:12.545][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:03:12.546][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:03:12.547][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:12.548][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:12.549][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:12.550][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:12.551][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:12.552][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:12.553][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:12.554][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:12.555][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:12.556][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:12.557][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:12.557][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:12.558][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:12.559][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:12.560][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:12.561][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-30 16:03:12.562][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:12.563][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:12.564][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:12.565][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:12.566][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:12.567][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:12.568][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:12.569][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:12.570][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:12.571][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:12.572][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:12.573][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:12.574][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [51836].
biodb.DEBUG[2025-08-30 16:03:12.575][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:12.576][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:12.577][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:12.581][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:12.582][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:12.582][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:12.583][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:12.584][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:12.585][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:12.586][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:12.587][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:12.588][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:12.589][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:12.590][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:12.591][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:12.592][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:12.593][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:03:12.594][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:03:12.595][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:03:12.596][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:12.597][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:12.598][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:12.599][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:12.600][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:12.600][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:12.602][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:12.602][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:12.603][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:12.604][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:12.605][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:12.606][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:12.607][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:12.608][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:12.609][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:12.610][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-30 16:03:12.611][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:12.612][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:12.613][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:12.614][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:12.615][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:12.616][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:12.617][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:12.618][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:12.618][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:12.619][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:12.620][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:12.621][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:12.623][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [51837].
biodb.DEBUG[2025-08-30 16:03:12.624][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:12.624][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:12.625][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:12.629][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:12.630][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:12.631][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:12.632][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:12.633][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:12.634][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:12.635][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:12.636][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:12.637][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:12.638][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:12.639][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:12.640][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:12.641][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:12.642][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:03:12.642][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:03:12.643][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:03:12.644][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:12.645][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:12.646][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:12.647][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:12.648][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:12.649][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:12.650][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:12.651][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:12.652][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:12.653][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:12.654][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:12.655][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:12.656][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:12.656][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:12.657][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:12.658][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-30 16:03:12.659][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:12.660][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:12.661][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:12.662][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:12.663][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:12.664][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:12.665][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:12.666][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:12.667][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:12.668][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:12.669][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:12.670][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:12.671][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [132205].
biodb.DEBUG[2025-08-30 16:03:12.672][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-08-30 16:03:12.673][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2025-08-30 16:03:12.689][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:12.690][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:12.691][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:12.695][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:12.696][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:12.697][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:12.698][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:03:12.700][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.72*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-08-30 16:03:12.703][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-08-30 16:03:12.704][cch$loadFileContent] Trying to load 1 files from cache: [1]: "dabc9e8530050c4ceebbaec76743bcf1".
biodb.TRACE[2025-08-30 16:03:12.705][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-08-30 16:03:12.707][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/dabc9e8530050c4ceebbaec76743bcf1.content".
biodb.DEBUG[2025-08-30 16:03:12.709][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:12.710][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:12.710][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:12.714][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:12.715][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:12.716][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:12.717][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:12.718][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:12.719][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:12.720][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:12.721][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:12.722][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:12.723][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:12.724][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:12.725][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:12.725][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:12.727][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:12.727][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:12.728][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:12.730][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.73*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-08-30 16:03:12.733][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-08-30 16:03:12.734][cch$loadFileContent] Trying to load 1 files from cache: [1]: "41b7f9723242a79cfe14bebd91dbb5b6".
biodb.TRACE[2025-08-30 16:03:12.735][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-08-30 16:03:12.736][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/41b7f9723242a79cfe14bebd91dbb5b6.content".
biodb.DEBUG[2025-08-30 16:03:12.739][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:12.740][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:12.740][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:12.744][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:12.745][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:12.746][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:12.747][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:12.748][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:12.749][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:12.750][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:12.751][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:12.752][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:12.753][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:12.754][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:12.755][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:12.755][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:12.756][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:12.757][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:12.758][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:12.759][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:12.760][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:12.761][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:12.765][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:12.766][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:12.767][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:12.767][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:12.769][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:12.770][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:12.770][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:12.771][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:12.772][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:12.773][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:12.774][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:12.775][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:12.776][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:12.777][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:12.778][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:12.779][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:12.780][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-08-30 16:03:12.782][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:12.782][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:12.783][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:12.792][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:12.793][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:12.794][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:12.795][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:12.796][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:12.797][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:12.798][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:12.799][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:12.800][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:12.801][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:12.802][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:12.803][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:12.804][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:12.805][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:03:12.805][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:03:12.806][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:03:12.807][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:12.808][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:12.809][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:12.810][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:12.811][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:12.812][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:12.813][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:12.814][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:12.815][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:12.816][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:12.817][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:12.817][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:12.818][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:12.819][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:12.820][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:12.821][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-30 16:03:12.822][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:12.823][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:12.824][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:12.825][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:12.826][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:12.827][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:12.828][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:12.829][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:12.830][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:12.831][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:12.831][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:12.832][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:12.834][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [192288].
biodb.DEBUG[2025-08-30 16:03:12.835][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:12.835][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:12.836][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:12.840][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:12.841][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:12.842][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:12.843][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:12.844][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:12.845][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:12.846][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:12.847][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:12.848][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:12.849][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:12.849][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:12.850][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:12.851][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:12.852][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:03:12.853][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:03:12.854][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:03:12.855][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:12.856][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:12.857][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:12.858][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:12.859][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:12.860][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:12.861][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:12.861][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:12.862][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:12.863][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:12.864][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:12.865][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:12.866][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:12.867][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:12.868][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:12.869][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-30 16:03:12.870][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:12.871][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:12.872][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:12.873][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:12.873][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:12.874][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:12.875][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:12.876][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:12.877][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:12.878][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:12.879][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:12.880][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:12.881][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-08-30 16:03:12.882][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:12.883][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:12.884][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:12.888][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:12.889][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:12.890][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:12.891][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:12.892][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:12.893][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:12.894][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:12.895][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:12.895][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:12.896][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:12.897][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:12.898][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:12.899][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:12.900][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:03:12.901][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:03:12.902][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:03:12.903][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:12.904][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:12.905][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:12.906][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:12.907][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:12.908][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:12.909][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:12.910][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:12.911][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:12.911][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:12.912][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:12.913][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:12.914][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:12.915][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:12.916][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:12.917][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-30 16:03:12.918][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:12.919][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:12.920][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:12.921][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:12.922][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:12.923][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:12.924][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:12.925][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:12.926][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:12.927][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:12.928][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:12.929][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:12.930][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [209892].
biodb.DEBUG[2025-08-30 16:03:12.931][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-08-30 16:03:12.932][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2025-08-30 16:03:12.934][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:12.934][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:12.935][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:12.939][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:12.940][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:12.941][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:12.942][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:03:12.944][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=480.62*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-08-30 16:03:12.947][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-08-30 16:03:12.948][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b3cd8ddf08f509014f10dc9bf7c1649d".
biodb.TRACE[2025-08-30 16:03:12.950][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-08-30 16:03:12.951][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b3cd8ddf08f509014f10dc9bf7c1649d.content".
biodb.DEBUG[2025-08-30 16:03:12.953][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:12.954][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:12.955][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:12.959][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:12.960][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:12.960][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:12.961][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:12.962][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:12.963][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:12.964][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:12.965][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:12.966][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:12.967][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:12.968][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:12.969][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:12.970][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:12.971][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:12.972][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:12.973][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:12.974][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:12.975][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:12.975][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:12.979][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:12.980][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:12.981][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:12.982][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:12.983][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:12.984][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:12.985][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:12.986][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:12.987][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:12.988][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:12.989][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:12.990][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:12.991][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:12.992][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:12.992][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:12.993][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:12.995][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=480.63*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-08-30 16:03:12.998][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-08-30 16:03:12.999][cch$loadFileContent] Trying to load 1 files from cache: [1]: "831507e33c6cf42061851262412f5feb".
biodb.TRACE[2025-08-30 16:03:13.000][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-08-30 16:03:13.001][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/831507e33c6cf42061851262412f5feb.content".
biodb.DEBUG[2025-08-30 16:03:13.004][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:13.005][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:13.006][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:13.009][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:13.010][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:13.011][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:13.012][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:13.013][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:13.014][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:13.015][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:13.016][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:13.017][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:13.018][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:13.019][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:13.020][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:13.021][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:13.022][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:13.023][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:13.023][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:13.024][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:13.025][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:13.026][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:13.030][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:13.031][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:13.032][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:13.033][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:13.034][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:13.035][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:13.036][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:13.037][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:13.038][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:13.039][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:13.039][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:13.040][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:13.041][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:13.042][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:13.043][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:13.044][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:13.045][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:13.046][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:13.047][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:13.051][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:13.052][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:13.052][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:13.053][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:13.054][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:13.055][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:13.056][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:13.057][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:13.058][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:13.059][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:13.060][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:13.061][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:13.062][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:13.063][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:13.064][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:13.065][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:13.066][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-08-30 16:03:13.067][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:13.068][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:13.069][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:13.073][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:13.074][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:13.075][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:13.075][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:13.077][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:13.078][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:13.078][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:13.079][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:13.080][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:13.081][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:13.082][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:13.083][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:13.084][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:13.085][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:03:13.086][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:03:13.087][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:03:13.088][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:13.089][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:13.090][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:13.091][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:13.091][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:13.092][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:13.093][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:13.094][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:13.095][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:13.096][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:13.097][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:13.098][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:13.099][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:13.100][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:13.101][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:13.102][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-30 16:03:13.103][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:13.104][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:13.110][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:13.111][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:13.112][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:13.113][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:13.114][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:13.115][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:13.116][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:13.117][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:13.118][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:13.119][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:13.120][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4781].
biodb.DEBUG[2025-08-30 16:03:13.121][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:13.122][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:13.123][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:13.127][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:13.127][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:13.128][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:13.129][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:13.130][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:13.131][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:13.132][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:13.133][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:13.134][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:13.135][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:13.136][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:13.137][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:13.138][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:13.138][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:03:13.139][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:03:13.140][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:03:13.141][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:13.142][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:13.143][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:13.144][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:13.145][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:13.146][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:13.147][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:13.148][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:13.149][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:13.149][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:13.150][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:13.151][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:13.152][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:13.153][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:13.154][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:13.155][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-30 16:03:13.156][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:13.157][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:13.158][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:13.159][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:13.160][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:13.161][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:13.162][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:13.162][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:13.163][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:13.164][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:13.165][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:13.166][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:13.167][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [16587].
biodb.DEBUG[2025-08-30 16:03:13.168][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:13.169][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:13.170][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:13.174][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:13.175][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:13.176][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:13.177][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:13.178][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:13.179][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:13.180][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:13.180][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:13.181][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:13.182][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:13.183][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:13.184][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:13.185][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:13.186][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:03:13.187][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:03:13.188][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:03:13.189][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:13.190][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:13.191][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:13.192][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:13.192][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:13.193][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:13.194][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:13.195][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:13.196][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:13.197][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:13.198][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:13.199][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:13.200][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:13.201][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:13.202][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:13.203][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-30 16:03:13.204][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:13.205][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:13.206][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:13.206][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:13.207][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:13.208][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:13.209][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:13.210][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:13.211][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:13.212][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:13.213][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:13.214][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:13.215][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [19804].
biodb.DEBUG[2025-08-30 16:03:13.216][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-08-30 16:03:13.217][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2025-08-30 16:03:13.219][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:13.220][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:13.221][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:13.225][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:13.226][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:13.226][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:13.227][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:03:13.230][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.38*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-08-30 16:03:13.233][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-08-30 16:03:13.234][cch$loadFileContent] Trying to load 1 files from cache: [1]: "26d0872875c47c33e8205aa7124e0486".
biodb.TRACE[2025-08-30 16:03:13.235][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-08-30 16:03:13.236][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/26d0872875c47c33e8205aa7124e0486.content".
biodb.DEBUG[2025-08-30 16:03:13.239][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:13.239][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:13.240][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:13.244][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:13.245][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:13.246][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:13.247][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:13.248][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:13.249][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:13.250][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:13.251][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:13.252][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:13.253][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:13.254][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:13.254][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:13.255][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:13.256][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:13.257][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:13.258][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:13.259][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:13.260][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:13.261][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:13.265][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:13.266][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:13.267][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:13.267][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:13.268][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:13.270][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:13.270][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:13.271][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:13.272][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:13.273][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:13.274][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:13.275][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:13.276][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:13.277][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:13.278][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:13.279][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:13.280][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:13.281][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:13.282][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:13.285][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:13.286][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:13.287][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:13.288][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:13.289][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:13.290][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:13.291][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:13.292][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:13.293][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:13.294][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:13.295][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:13.296][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:13.297][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:13.298][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:13.299][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:13.300][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:13.301][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:13.301][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:13.302][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:13.306][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:13.307][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:13.308][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:13.309][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:13.310][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:13.311][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:13.312][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:13.313][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:13.314][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:13.315][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:13.315][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:13.316][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:13.317][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:13.318][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:13.319][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:13.320][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:13.321][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:13.322][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:13.323][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:13.327][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:13.328][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:13.328][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:13.329][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:13.330][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:13.331][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:13.332][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:13.333][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:13.334][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:13.335][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:13.336][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:13.337][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:13.338][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:13.339][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:13.340][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:13.341][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:13.342][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:13.343][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:13.343][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:13.347][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:13.348][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:13.349][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:13.350][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:13.351][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:13.352][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:13.353][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:13.354][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:13.355][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:13.356][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:13.357][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:13.358][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:13.358][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:13.359][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:13.360][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:13.361][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:13.362][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:13.363][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:13.364][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:13.368][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:13.369][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:13.370][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:13.370][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:13.371][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:13.372][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:13.373][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:13.374][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:13.375][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:13.376][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:13.377][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:13.378][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:13.379][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:13.380][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:13.381][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:13.382][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:13.383][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:13.384][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:13.385][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:13.388][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:13.389][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:13.390][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:13.391][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:13.392][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:13.393][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:13.394][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:13.395][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:13.396][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:13.397][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:13.398][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:13.399][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:13.400][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:13.401][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:13.402][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:13.403][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:13.404][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-08-30 16:03:13.407][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-08-30 16:03:13.408][cch$loadFileContent] Trying to load 1 files from cache: [1]: "357534c211a0779cb44e196fcebae6c0".
biodb.TRACE[2025-08-30 16:03:13.410][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-08-30 16:03:13.411][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/357534c211a0779cb44e196fcebae6c0.content".
biodb.DEBUG[2025-08-30 16:03:13.413][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:13.414][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:13.415][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:13.418][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:13.419][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:13.420][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:13.421][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:13.422][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:13.423][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:13.429][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:13.430][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:13.431][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:13.432][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:13.433][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:13.434][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:13.435][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:13.436][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:13.437][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:13.438][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:13.439][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:13.440][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:13.441][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:13.444][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:13.445][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:13.446][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:13.447][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:13.448][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:13.449][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:13.450][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:13.451][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:13.452][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:13.453][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:13.454][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:13.455][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:13.456][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:13.457][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:13.457][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:13.458][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:13.459][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:13.460][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:13.461][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:13.465][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:13.466][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:13.466][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:13.467][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:13.468][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:13.469][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:13.470][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:13.471][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:13.472][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:13.473][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:13.474][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:13.475][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:13.476][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:13.477][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:13.478][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:13.479][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:13.480][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-08-30 16:03:13.481][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:13.482][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:13.483][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:13.487][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:13.487][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:13.488][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:13.489][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:13.490][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:13.491][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:13.492][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:13.493][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:13.494][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:13.495][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:13.496][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:13.497][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:13.498][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:13.499][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:03:13.499][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:03:13.500][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:03:13.501][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:13.502][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:13.503][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:13.504][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:13.505][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:13.506][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:13.507][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:13.508][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:13.509][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:13.510][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:13.511][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:13.511][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:13.512][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:13.513][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:13.514][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:13.515][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-30 16:03:13.516][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:13.517][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:13.518][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:13.519][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:13.520][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:13.521][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:13.522][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:13.523][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:13.524][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:13.525][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:13.526][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:13.527][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:13.528][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [7799].
biodb.DEBUG[2025-08-30 16:03:13.529][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:13.530][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:13.530][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:13.534][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:13.535][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:13.536][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:13.537][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:13.538][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:13.539][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:13.540][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:13.541][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:13.542][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:13.543][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:13.544][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:13.545][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:13.546][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:13.547][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:03:13.548][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:03:13.548][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:03:13.549][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:13.550][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:13.551][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:13.552][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:13.553][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:13.554][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:13.555][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:13.556][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:13.557][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:13.558][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:13.559][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:13.560][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:13.561][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:13.562][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:13.563][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:13.564][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-30 16:03:13.565][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:13.566][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:13.567][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:13.567][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:13.568][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:13.569][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:13.570][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:13.571][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:13.572][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:13.573][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:13.574][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:13.575][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:13.576][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [71954].
biodb.DEBUG[2025-08-30 16:03:13.577][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:13.578][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:13.579][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:13.583][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:13.584][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:13.585][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:13.585][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:13.587][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:13.588][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:13.589][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:13.589][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:13.590][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:13.591][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:13.592][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:13.593][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:13.594][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:13.595][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:03:13.596][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:03:13.597][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:03:13.598][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:13.599][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:13.600][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:13.601][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:13.602][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:13.603][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:13.604][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:13.604][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:13.605][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:13.606][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:13.607][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:13.608][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:13.609][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:13.610][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:13.611][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:13.612][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-30 16:03:13.613][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:13.614][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:13.615][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:13.616][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:13.617][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:13.618][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:13.619][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:13.620][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:13.621][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:13.622][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:13.623][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:13.623][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:13.625][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [197612].
biodb.DEBUG[2025-08-30 16:03:13.626][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-08-30 16:03:13.627][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2025-08-30 16:03:13.643][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:13.644][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:13.645][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:13.649][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:13.650][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:13.650][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:13.651][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:03:13.654][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.7*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-08-30 16:03:13.657][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-08-30 16:03:13.658][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-08-30 16:03:13.659][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.7%2A&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.TRACE[2025-08-30 16:03:13.993][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.7%2A&searchCategory=MASS&maximumResults=0&starsCategory=ALL).
biodb.DEBUG[2025-08-30 16:03:14.327][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2025-08-30 16:03:14.331][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/2b6f29bb7a7663ff23fb5e7dcae5c27f.content"
biodb.TRACE[2025-08-30 16:03:14.339][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/2b6f29bb7a7663ff23fb5e7dcae5c27f.request"
biodb.DEBUG[2025-08-30 16:03:14.345][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:14.347][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:14.349][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:14.358][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:14.360][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:14.362][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:14.364][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:14.366][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:14.369][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:14.370][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:14.372][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:14.374][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:14.376][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:14.378][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:14.379][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:14.381][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:14.382][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:14.384][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:14.385][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:14.387][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:14.388][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:14.389][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:14.395][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:14.396][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:14.397][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:14.398][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:14.400][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:14.401][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:14.402][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:14.403][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:14.404][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:14.406][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:14.407][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:14.408][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:14.409][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:14.410][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:14.411][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:14.412][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:14.413][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:14.414][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:14.415][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:14.419][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:14.420][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:14.421][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:14.421][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:03:14.422][private$loadEntries] Creating entries from ids [1]: "28243".
biodb.DEBUG[2025-08-30 16:03:14.423][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-08-30 16:03:14.425][cch$loadFileContent] Trying to load 1 files from cache: [1]: "28243".
biodb.TRACE[2025-08-30 16:03:14.426][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-08-30 16:03:14.427][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-08-30 16:03:14.428][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-30 16:03:14.429][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-08-30 16:03:14.430][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-08-30 16:03:14.431][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-08-30 16:03:14.434][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:14.435][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:14.435][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:14.439][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:14.440][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:14.441][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:14.442][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:03:14.443][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=28243".
biodb.DEBUG[2025-08-30 16:03:14.455][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-08-30 16:03:14.456][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-08-30 16:03:14.457][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=28243".
biodb.TRACE[2025-08-30 16:03:14.832][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=28243).
biodb.DEBUG[2025-08-30 16:03:15.181][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-08-30 16:03:15.186][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/177c3a227615d232b537605885883911.content"
biodb.TRACE[2025-08-30 16:03:15.193][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/177c3a227615d232b537605885883911.request"
biodb.TRACE[2025-08-30 16:03:15.199][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/28243.xml"
biodb.DEBUG[2025-08-30 16:03:15.202][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-08-30 16:03:15.205][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-30 16:03:15.208][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-30 16:03:15.211][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:15.213][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:15.216][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:15.225][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:15.227][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:15.229][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:15.230][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:15.234][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:15.236][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:15.237][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:15.239][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:15.241][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:15.242][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:15.244][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:15.245][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:15.247][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:03:15.248][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:03:15.250][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:15.251][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:15.252][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:03:15.254][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:03:15.255][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:15.256][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:15.257][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:03:15.259][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:03:15.260][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:15.261][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:15.262][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:03:15.263][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:03:15.264][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:15.265][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:15.266][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:03:15.268][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:03:15.269][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:15.269][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:15.271][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:03:15.272][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:03:15.273][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:15.274][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:15.275][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:03:15.276][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:03:15.277][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:15.278][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:15.279][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:03:15.280][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:03:15.281][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:15.282][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:15.283][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:03:15.284][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:03:15.284][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:15.285][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:15.287][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:03:15.288][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:03:15.289][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:15.290][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:15.291][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:03:15.292][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:15.292][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:15.293][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:15.295][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:03:15.296][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:15.296][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:15.297][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:15.298][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:15.299][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:15.300][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:15.301][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:15.303][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:15.304][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:15.304][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:15.305][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:15.306][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:03:15.307][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:03:15.308][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:15.309][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:15.311][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:03:15.312][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:03:15.312][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:15.313][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:15.315][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:03:15.316][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:03:15.317][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:15.318][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:15.319][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:03:15.320][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:03:15.321][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:15.321][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:15.323][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:03:15.324][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:03:15.325][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:15.326][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:15.327][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:03:15.328][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:03:15.329][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:15.330][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:15.331][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:15.332][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:15.333][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:15.334][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:15.335][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:15.336][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:15.337][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:15.338][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:15.339][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:15.340][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:15.341][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:15.341][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:15.343][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:15.344][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:15.345][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:15.346][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:15.347][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:15.348][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:15.349][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:15.349][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:15.350][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:15.351][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:15.352][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:15.353][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:15.354][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:15.355][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:15.356][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:15.357][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:15.358][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:15.359][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:15.360][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:15.361][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:15.362][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:15.363][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:15.364][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:15.365][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:15.366][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:15.367][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:15.368][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:15.369][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:15.370][self$createEntryFromContent] Accession numbers: 28243.
biodb.TRACE[2025-08-30 16:03:15.371][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:15.372][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:15.373][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:15.374][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:15.375][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:15.376][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:15.377][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:15.378][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:15.379][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:15.380][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:15.381][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:15.382][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:15.383][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:15.384][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:15.384][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:15.389][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:15.390][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:15.391][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:15.392][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:15.393][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:15.394][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:15.395][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:15.395][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:15.396][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:15.397][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:15.398][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:15.399][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:15.401][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:15.402][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:15.402][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:15.403][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:15.404][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:15.405][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:15.406][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:15.410][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:15.411][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:15.412][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:15.413][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:03:15.414][private$loadEntries] Creating entries from ids [1]: "70786".
biodb.DEBUG[2025-08-30 16:03:15.415][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-08-30 16:03:15.416][cch$loadFileContent] Trying to load 1 files from cache: [1]: "70786".
biodb.TRACE[2025-08-30 16:03:15.418][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-08-30 16:03:15.419][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-08-30 16:03:15.420][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-30 16:03:15.421][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-08-30 16:03:15.422][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-08-30 16:03:15.423][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-08-30 16:03:15.425][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:15.426][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:15.427][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:15.431][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:15.432][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:15.433][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:15.434][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:03:15.435][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=70786".
biodb.DEBUG[2025-08-30 16:03:15.437][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-08-30 16:03:15.438][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-08-30 16:03:15.440][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=70786".
biodb.TRACE[2025-08-30 16:03:15.781][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=70786).
biodb.DEBUG[2025-08-30 16:03:16.154][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-08-30 16:03:16.158][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/ea24f2a708fc4a90f6eff28b49d993c4.content"
biodb.TRACE[2025-08-30 16:03:16.163][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/ea24f2a708fc4a90f6eff28b49d993c4.request"
biodb.TRACE[2025-08-30 16:03:16.168][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/70786.xml"
biodb.DEBUG[2025-08-30 16:03:16.170][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-08-30 16:03:16.172][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-30 16:03:16.174][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-30 16:03:16.177][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:16.178][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:16.180][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:16.187][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:16.189][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:16.190][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:16.192][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:16.195][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:16.197][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:16.199][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:16.200][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:16.202][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:16.203][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:16.205][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:16.206][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:16.208][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:03:16.209][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:03:16.210][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:16.212][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:16.213][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:03:16.214][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:03:16.216][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:16.217][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:16.218][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:03:16.219][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:03:16.220][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:16.221][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:16.223][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:03:16.224][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:03:16.225][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:16.226][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:16.227][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:03:16.228][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:03:16.229][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:16.230][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:16.231][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:03:16.232][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:03:16.233][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:16.234][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:16.235][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:03:16.236][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:03:16.237][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:16.238][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:16.239][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:03:16.240][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:03:16.241][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:16.242][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:16.243][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:03:16.244][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:03:16.245][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:16.246][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:16.247][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:03:16.248][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:16.249][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:16.250][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:16.251][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:03:16.252][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:16.253][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:16.254][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:16.255][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:16.256][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:16.257][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:16.258][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:16.259][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:16.260][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:16.261][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:16.262][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:16.263][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:03:16.264][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:03:16.265][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:16.266][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:16.267][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:03:16.268][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:03:16.269][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:16.270][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:16.271][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:03:16.272][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:03:16.273][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:16.274][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:16.275][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:03:16.288][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:03:16.290][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:16.291][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:16.292][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:03:16.293][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:03:16.294][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:16.295][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:16.296][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:03:16.297][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:03:16.298][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:16.299][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:16.300][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:16.301][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:16.302][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:16.303][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:16.304][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:16.305][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:16.306][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:16.306][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:16.307][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:16.308][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:16.309][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:16.310][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:16.311][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:16.312][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:16.313][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:16.314][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:16.315][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:16.316][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:16.317][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:16.318][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:16.319][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:16.320][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:16.321][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:16.322][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:16.323][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:16.324][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:16.325][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:16.325][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:16.326][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:16.327][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:16.328][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:16.329][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:16.330][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:16.331][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:16.332][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:16.333][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:16.334][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:16.335][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:16.336][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:16.337][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:16.338][self$createEntryFromContent] Accession numbers: 70786.
biodb.TRACE[2025-08-30 16:03:16.339][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:16.340][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:16.341][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:16.342][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:16.343][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:16.344][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:16.345][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:16.346][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:16.347][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:16.348][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:16.349][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:16.350][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:16.351][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:16.351][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:16.352][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:16.356][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:16.357][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:16.358][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:16.359][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:03:16.360][private$loadEntries] Creating entries from ids [1]: "78144".
biodb.DEBUG[2025-08-30 16:03:16.361][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-08-30 16:03:16.363][cch$loadFileContent] Trying to load 1 files from cache: [1]: "78144".
biodb.TRACE[2025-08-30 16:03:16.364][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-08-30 16:03:16.365][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-08-30 16:03:16.366][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-30 16:03:16.367][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-08-30 16:03:16.368][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-08-30 16:03:16.369][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-08-30 16:03:16.371][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:16.372][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:16.373][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:16.377][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:16.378][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:16.379][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:16.380][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:03:16.381][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=78144".
biodb.DEBUG[2025-08-30 16:03:16.383][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-08-30 16:03:16.384][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-08-30 16:03:16.386][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=78144".
biodb.TRACE[2025-08-30 16:03:16.719][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=78144).
biodb.DEBUG[2025-08-30 16:03:17.056][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-08-30 16:03:17.060][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/1ede5a640bd42c7611e16282ef185b74.content"
biodb.TRACE[2025-08-30 16:03:17.067][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/1ede5a640bd42c7611e16282ef185b74.request"
biodb.TRACE[2025-08-30 16:03:17.073][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/78144.xml"
biodb.DEBUG[2025-08-30 16:03:17.075][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-08-30 16:03:17.078][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-30 16:03:17.080][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-30 16:03:17.084][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:17.086][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:17.088][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:17.097][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:17.099][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:17.101][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:17.102][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:17.106][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:17.108][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:17.109][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:17.111][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:17.113][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:17.115][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:17.116][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:17.117][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:17.119][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:03:17.120][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:03:17.122][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:17.123][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:17.124][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:03:17.126][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:03:17.127][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:17.128][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:17.130][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:03:17.131][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:03:17.132][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:17.133][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:17.134][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:03:17.136][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:03:17.137][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:17.138][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:17.139][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:03:17.140][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:03:17.141][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:17.142][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:17.143][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:03:17.144][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:03:17.145][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:17.146][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:17.147][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:03:17.148][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:03:17.149][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:17.150][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:17.151][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:03:17.152][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:17.153][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:17.154][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:17.156][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:03:17.157][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:17.158][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:17.159][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:17.160][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:17.161][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:17.162][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:17.162][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:17.164][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:17.165][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:17.166][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:17.167][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:17.168][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:03:17.169][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:03:17.170][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:17.171][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:17.172][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:03:17.173][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:03:17.174][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:17.175][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:17.176][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:03:17.177][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:03:17.178][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:17.179][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:17.180][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:03:17.181][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:03:17.182][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:17.183][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:17.184][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:03:17.185][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:03:17.186][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:17.187][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:17.188][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:03:17.189][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:03:17.190][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:17.191][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:17.192][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:17.193][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:17.194][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:17.195][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:17.196][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:17.197][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:17.198][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:17.199][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:17.200][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:17.201][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:17.202][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:17.203][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:17.204][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:17.205][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:17.206][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:17.206][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:17.207][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:17.209][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:17.209][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:17.210][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:17.211][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:17.213][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:17.213][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:17.214][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:17.215][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:17.216][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:17.217][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:17.218][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:17.219][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:17.220][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:17.221][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:17.222][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:17.223][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:17.224][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:17.225][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:17.226][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:17.227][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:17.228][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:17.229][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:17.230][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:17.231][self$createEntryFromContent] Accession numbers: 78144.
biodb.TRACE[2025-08-30 16:03:17.232][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:17.233][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:17.234][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:17.235][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:17.236][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:17.237][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:17.238][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:17.239][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:17.240][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:17.241][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:17.242][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:17.243][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:17.244][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-08-30 16:03:17.245][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:17.246][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:17.247][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:17.251][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:17.252][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:17.253][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:17.254][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:17.255][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:17.256][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:17.257][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:17.258][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:17.259][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:17.260][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:17.261][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:17.262][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:17.263][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:17.264][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:03:17.265][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:03:17.266][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:03:17.267][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:17.268][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:17.269][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:17.270][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:17.271][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:17.272][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:17.273][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:17.274][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:17.275][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:17.276][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:17.276][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:17.277][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:17.278][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:17.279][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:17.280][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:17.281][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-30 16:03:17.282][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:17.283][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:17.284][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:17.285][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:17.286][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:17.287][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:17.288][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:17.289][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:17.290][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:17.291][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:17.292][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:17.293][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:17.294][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-08-30 16:03:17.295][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:17.296][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:17.297][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:17.301][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:17.302][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:17.303][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:17.304][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:17.305][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:17.306][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:17.307][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:17.308][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:17.309][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:17.310][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:17.311][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:17.312][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:17.313][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:17.314][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:03:17.315][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:03:17.316][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:03:17.325][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:17.327][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:17.328][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:17.329][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:17.330][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:17.331][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:17.332][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:17.333][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:17.334][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:17.334][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:17.335][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:17.336][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:17.337][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:17.338][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:17.339][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:17.340][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-30 16:03:17.341][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:17.342][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:17.343][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:17.344][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:17.345][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:17.346][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:17.347][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:17.348][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:17.349][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:17.350][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:17.351][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:17.351][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:17.353][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [28243].
biodb.DEBUG[2025-08-30 16:03:17.354][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:17.355][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:17.356][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:17.360][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:17.361][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:17.361][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:17.362][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:17.363][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:17.364][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:17.365][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:17.366][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:17.367][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:17.368][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:17.369][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:17.370][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:17.371][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:17.372][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:03:17.373][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:03:17.374][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:03:17.375][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:17.376][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:17.377][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:17.378][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:17.378][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:17.379][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:17.380][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:17.381][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:17.382][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:17.383][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:17.384][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:17.385][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:17.386][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:17.387][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:17.388][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:17.389][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-30 16:03:17.390][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:17.391][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:17.392][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:17.393][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:17.394][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:17.395][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:17.395][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:17.396][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:17.398][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:17.399][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:17.399][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:17.400][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:17.402][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [78144].
biodb.DEBUG[2025-08-30 16:03:17.403][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-08-30 16:03:17.403][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2025-08-30 16:03:17.405][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:17.406][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:17.407][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:17.411][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:17.412][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:17.413][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:17.414][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:03:17.417][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=480.6*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-08-30 16:03:17.419][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-08-30 16:03:17.420][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-08-30 16:03:17.422][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=480.6%2A&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.TRACE[2025-08-30 16:03:17.764][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=480.6%2A&searchCategory=MASS&maximumResults=0&starsCategory=ALL).
biodb.DEBUG[2025-08-30 16:03:18.261][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2025-08-30 16:03:18.266][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/9a13652ab89a613a3b0e10d3b6cb10a0.content"
biodb.TRACE[2025-08-30 16:03:18.274][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/9a13652ab89a613a3b0e10d3b6cb10a0.request"
biodb.DEBUG[2025-08-30 16:03:18.284][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:18.286][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:18.289][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:18.298][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:18.300][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:18.302][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:18.304][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:18.307][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:18.309][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:18.311][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:18.312][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:18.314][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:18.316][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:18.317][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:18.319][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:18.321][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:18.322][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:18.324][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:18.325][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:18.326][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:18.328][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:18.329][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:18.334][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:18.336][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:18.337][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:18.338][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:18.339][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:18.340][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:18.341][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:18.342][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:18.343][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:18.345][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:18.346][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:18.347][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:18.348][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:18.349][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:18.350][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:18.351][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:18.352][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:18.353][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:18.354][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:18.358][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:18.359][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:18.359][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:18.360][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:18.361][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:18.363][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:18.364][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:18.365][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:18.365][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:18.366][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:18.367][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:18.368][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:18.369][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:18.370][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:18.371][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:18.372][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:18.373][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-08-30 16:03:18.375][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:18.376][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:18.376][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:18.381][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:18.381][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:18.382][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:18.383][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:18.384][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:18.385][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:18.386][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:18.387][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:18.388][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:18.389][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:18.390][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:18.391][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:18.392][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:18.393][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:03:18.394][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:03:18.395][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:03:18.396][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:18.397][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:18.398][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:18.399][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:18.399][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:18.400][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:18.401][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:18.402][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:18.403][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:18.404][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:18.405][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:18.406][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:18.407][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:18.408][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:18.409][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:18.410][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-30 16:03:18.411][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:18.412][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:18.413][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:18.414][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:18.415][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:18.416][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:18.417][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:18.418][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:18.419][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:18.420][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:18.421][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:18.422][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:18.423][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4781].
biodb.DEBUG[2025-08-30 16:03:18.424][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:18.425][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:18.426][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:18.429][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:18.430][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:18.431][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:18.432][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:18.433][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:18.434][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:18.435][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:18.436][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:18.437][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:18.438][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:18.439][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:18.440][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:18.441][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:18.442][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:03:18.443][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:03:18.444][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:03:18.445][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:18.446][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:18.447][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:18.447][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:18.449][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:18.450][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:18.451][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:18.451][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:18.452][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:18.453][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:18.454][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:18.455][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:18.456][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:18.457][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:18.458][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:18.459][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-30 16:03:18.460][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:18.461][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:18.462][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:18.463][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:18.464][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:18.465][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:18.466][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:18.467][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:18.468][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:18.469][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:18.470][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:18.470][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:18.472][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [16587].
biodb.DEBUG[2025-08-30 16:03:18.473][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:18.474][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:18.474][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:18.479][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:18.479][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:18.480][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:18.481][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:18.482][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:18.483][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:18.484][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:18.485][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:18.486][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:18.487][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:18.488][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:18.489][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:18.490][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:18.491][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:03:18.492][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:03:18.493][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:03:18.494][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:18.495][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:18.496][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:18.497][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:18.498][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:18.499][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:18.500][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:18.501][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:18.501][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:18.502][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:18.503][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:18.504][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:18.506][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:18.506][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:18.507][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:18.508][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-30 16:03:18.509][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:18.510][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:18.511][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:18.512][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:18.513][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:18.514][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:18.515][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:18.516][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:18.517][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:18.518][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:18.528][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:18.529][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:18.530][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [19804].
biodb.DEBUG[2025-08-30 16:03:18.531][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-08-30 16:03:18.532][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2025-08-30 16:03:18.534][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:18.535][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:18.536][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:18.540][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:18.541][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:18.542][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:18.543][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:03:18.545][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.3*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-08-30 16:03:18.548][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-08-30 16:03:18.549][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-08-30 16:03:18.551][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.3%2A&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.TRACE[2025-08-30 16:03:18.885][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.3%2A&searchCategory=MASS&maximumResults=0&starsCategory=ALL).
biodb.DEBUG[2025-08-30 16:03:19.232][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2025-08-30 16:03:19.237][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/a985300ab8a01d49254fbf993ad91279.content"
biodb.TRACE[2025-08-30 16:03:19.245][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/a985300ab8a01d49254fbf993ad91279.request"
biodb.DEBUG[2025-08-30 16:03:19.253][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:19.255][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:19.257][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:19.267][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:19.269][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:19.271][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:19.273][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:19.276][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:19.278][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:19.280][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:19.282][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:19.284][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:19.286][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:19.287][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:19.289][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:19.291][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:19.292][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:19.294][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:19.295][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:19.296][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:19.298][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:19.299][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:19.304][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:19.305][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:19.306][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:19.307][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:03:19.309][private$loadEntries] Creating entries from ids [1]: "47739".
biodb.DEBUG[2025-08-30 16:03:19.310][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-08-30 16:03:19.312][cch$loadFileContent] Trying to load 1 files from cache: [1]: "47739".
biodb.TRACE[2025-08-30 16:03:19.313][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-08-30 16:03:19.314][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-08-30 16:03:19.315][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-30 16:03:19.316][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-08-30 16:03:19.317][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-08-30 16:03:19.318][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-08-30 16:03:19.321][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:19.322][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:19.323][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:19.327][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:19.328][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:19.329][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:19.329][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:03:19.331][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=47739".
biodb.DEBUG[2025-08-30 16:03:19.333][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-08-30 16:03:19.334][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-08-30 16:03:19.335][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=47739".
biodb.TRACE[2025-08-30 16:03:19.875][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=47739).
biodb.DEBUG[2025-08-30 16:03:20.211][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-08-30 16:03:20.216][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/0dc9c92acc9df5971b3177a6daad90f3.content"
biodb.TRACE[2025-08-30 16:03:20.223][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/0dc9c92acc9df5971b3177a6daad90f3.request"
biodb.TRACE[2025-08-30 16:03:20.229][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/47739.xml"
biodb.DEBUG[2025-08-30 16:03:20.232][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-08-30 16:03:20.235][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-30 16:03:20.238][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-30 16:03:20.242][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:20.244][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:20.246][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:20.256][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:20.257][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:20.259][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:20.261][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:20.264][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:20.266][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:20.268][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:20.270][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:20.271][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:20.273][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:20.274][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:20.276][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:20.277][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:03:20.279][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:03:20.280][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:20.281][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:20.283][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:03:20.284][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:03:20.286][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:20.287][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:20.288][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:03:20.289][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:03:20.290][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:20.291][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:20.293][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:03:20.294][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:03:20.295][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:20.296][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:20.297][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:03:20.298][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:03:20.299][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:20.300][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:20.302][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:03:20.303][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:03:20.304][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:20.305][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:20.306][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:03:20.307][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:03:20.308][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:20.309][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:20.310][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:03:20.311][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:03:20.312][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:20.313][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:20.314][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:03:20.315][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:03:20.316][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:20.317][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:20.318][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:03:20.319][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:20.320][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:20.321][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:20.322][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:03:20.323][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:20.324][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:20.325][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:20.326][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:20.327][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:20.328][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:20.329][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:20.330][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:20.331][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:20.332][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:20.333][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:20.334][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:03:20.335][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:03:20.336][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:20.337][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:20.338][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:03:20.339][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:03:20.340][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:20.341][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:20.342][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:03:20.343][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:03:20.344][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:20.345][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:20.346][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:03:20.347][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:03:20.348][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:20.349][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:20.350][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:03:20.351][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:03:20.352][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:20.353][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:20.354][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:03:20.355][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:03:20.356][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:20.357][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:20.358][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:20.359][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:20.360][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:20.361][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:20.362][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:20.363][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:20.364][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:20.364][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:20.365][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:20.367][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:20.367][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:20.368][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:20.369][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:20.370][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:20.371][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:20.372][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:20.373][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:20.374][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:20.375][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:20.376][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:20.377][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:20.378][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:20.379][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:20.380][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:20.381][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:20.382][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:20.383][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:20.384][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:20.385][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:20.386][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:20.387][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:20.388][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:20.389][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:20.390][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:20.391][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:20.392][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:20.393][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:20.394][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:20.395][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:20.395][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:20.396][self$createEntryFromContent] Accession numbers: 47739.
biodb.TRACE[2025-08-30 16:03:20.398][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:20.399][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:20.399][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:20.400][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:20.401][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:20.402][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:20.403][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:20.404][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:20.405][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:20.406][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:20.407][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:20.408][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:20.409][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:20.410][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:20.411][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:20.415][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:20.416][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:20.417][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:20.418][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:03:20.419][private$loadEntries] Creating entries from ids [1]: "51744".
biodb.DEBUG[2025-08-30 16:03:20.420][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-08-30 16:03:20.421][cch$loadFileContent] Trying to load 1 files from cache: [1]: "51744".
biodb.TRACE[2025-08-30 16:03:20.423][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-08-30 16:03:20.424][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-08-30 16:03:20.425][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-30 16:03:20.426][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-08-30 16:03:20.427][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-08-30 16:03:20.428][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-08-30 16:03:20.430][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:20.431][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:20.432][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:20.436][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:20.437][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:20.438][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:20.439][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:03:20.440][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=51744".
biodb.DEBUG[2025-08-30 16:03:20.442][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-08-30 16:03:20.443][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-08-30 16:03:20.445][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=51744".
biodb.TRACE[2025-08-30 16:03:20.812][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=51744).
biodb.DEBUG[2025-08-30 16:03:21.148][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-08-30 16:03:21.153][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/34d89a621633962f5a6b9b09f1ef84ed.content"
biodb.TRACE[2025-08-30 16:03:21.160][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/34d89a621633962f5a6b9b09f1ef84ed.request"
biodb.TRACE[2025-08-30 16:03:21.166][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/51744.xml"
biodb.DEBUG[2025-08-30 16:03:21.169][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-08-30 16:03:21.172][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-30 16:03:21.175][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-30 16:03:21.178][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:21.181][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:21.183][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:21.192][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:21.194][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:21.196][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:21.198][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:21.201][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:21.203][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:21.205][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:21.206][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:21.208][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:21.210][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:21.211][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:21.213][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:21.214][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:03:21.216][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:03:21.233][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:21.234][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:21.235][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:03:21.236][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:03:21.237][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:21.238][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:21.239][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:03:21.240][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:03:21.241][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:21.242][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:21.243][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:03:21.244][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:03:21.245][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:21.246][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:21.247][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:03:21.248][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:03:21.249][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:21.250][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:21.251][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:03:21.252][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:03:21.253][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:21.254][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:21.255][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:03:21.256][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:03:21.257][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:21.258][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:21.259][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:03:21.260][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:03:21.261][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:21.262][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:21.263][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:03:21.264][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:03:21.265][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:21.266][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:21.267][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:03:21.268][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:21.269][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:21.270][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:21.271][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:03:21.272][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:21.273][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:21.274][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:21.275][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:21.276][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:21.277][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:21.277][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:21.279][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:21.280][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:21.280][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:21.281][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:21.282][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:03:21.283][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:03:21.284][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:21.285][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:21.286][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:03:21.287][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:03:21.288][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:21.289][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:21.290][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:03:21.291][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:03:21.292][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:21.293][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:21.294][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:03:21.295][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:03:21.296][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:21.297][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:21.298][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:03:21.299][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:03:21.300][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:21.301][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:21.302][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:03:21.303][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:03:21.304][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:21.305][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:21.306][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:21.307][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:21.308][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:21.309][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:21.310][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:21.311][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:21.312][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:21.313][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:21.314][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:21.315][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:21.315][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:21.316][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:21.317][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:21.318][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:21.319][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:21.320][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:21.321][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:21.322][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:21.323][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:21.324][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:21.325][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:21.326][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:21.327][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:21.328][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:21.329][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:21.330][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:21.331][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:21.332][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:21.333][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:21.334][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:21.335][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:21.336][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:21.337][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:21.338][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:21.339][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:21.340][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:21.341][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:21.342][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:21.343][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:21.343][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:21.344][self$createEntryFromContent] Accession numbers: 51744.
biodb.TRACE[2025-08-30 16:03:21.346][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:21.347][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:21.348][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:21.348][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:21.349][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:21.350][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:21.351][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:21.352][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:21.353][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:21.354][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:21.355][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:21.356][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:21.357][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:21.358][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:21.359][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:21.363][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:21.364][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:21.365][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:21.366][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:03:21.367][private$loadEntries] Creating entries from ids [1]: "64473".
biodb.DEBUG[2025-08-30 16:03:21.368][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-08-30 16:03:21.369][cch$loadFileContent] Trying to load 1 files from cache: [1]: "64473".
biodb.TRACE[2025-08-30 16:03:21.371][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-08-30 16:03:21.372][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-08-30 16:03:21.373][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-30 16:03:21.374][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-08-30 16:03:21.375][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-08-30 16:03:21.376][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-08-30 16:03:21.378][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:21.379][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:21.380][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:21.384][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:21.385][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:21.386][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:21.387][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:03:21.389][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=64473".
biodb.DEBUG[2025-08-30 16:03:21.391][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-08-30 16:03:21.392][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-08-30 16:03:21.393][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=64473".
biodb.TRACE[2025-08-30 16:03:21.763][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=64473).
biodb.DEBUG[2025-08-30 16:03:22.109][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-08-30 16:03:22.116][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/0bc75e6e381d0b772364b3d17c4c0f5e.content"
biodb.TRACE[2025-08-30 16:03:22.125][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/0bc75e6e381d0b772364b3d17c4c0f5e.request"
biodb.TRACE[2025-08-30 16:03:22.132][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/64473.xml"
biodb.DEBUG[2025-08-30 16:03:22.136][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-08-30 16:03:22.139][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-30 16:03:22.143][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-30 16:03:22.148][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:22.150][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:22.152][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:22.164][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:22.165][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:22.167][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:22.169][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:22.173][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:22.174][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:22.176][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:22.177][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:22.179][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:22.181][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:22.182][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:22.183][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:22.185][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:03:22.186][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:03:22.188][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:22.189][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:22.190][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:03:22.192][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:03:22.193][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:22.194][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:22.195][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:03:22.196][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:03:22.198][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:22.199][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:22.200][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:03:22.201][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:03:22.202][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:22.203][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:22.205][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:03:22.206][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:03:22.207][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:22.208][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:22.209][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:03:22.210][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:03:22.211][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:22.212][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:22.214][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:03:22.215][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:03:22.216][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:22.217][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:22.218][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:03:22.219][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:03:22.220][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:22.221][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:22.222][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:03:22.223][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:03:22.224][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:22.226][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:22.227][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:03:22.228][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:22.229][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:22.230][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:22.231][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:03:22.233][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:22.234][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:22.235][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:22.236][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:22.237][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:22.238][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:22.239][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:22.241][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:22.242][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:22.243][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:22.244][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:22.245][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:03:22.246][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:03:22.247][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:22.248][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:22.249][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:03:22.251][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:03:22.252][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:22.253][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:22.254][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:03:22.255][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:03:22.256][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:22.257][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:22.258][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:03:22.260][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:03:22.261][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:22.262][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:22.263][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:03:22.264][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:03:22.265][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:22.266][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:22.267][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:03:22.269][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:03:22.270][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:22.271][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:22.272][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:22.273][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:22.274][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:22.275][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:22.276][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:22.277][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:22.278][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:22.279][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:22.280][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:22.282][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:22.283][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:22.284][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:22.285][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:22.286][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:22.287][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:22.288][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:22.289][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:22.290][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:22.291][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:22.292][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:22.293][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:22.294][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:22.295][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:22.297][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:22.298][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:22.299][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:22.300][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:22.301][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:22.302][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:22.303][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:22.304][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:22.305][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:22.306][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:22.307][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:22.309][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:22.310][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:22.311][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:22.312][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:22.313][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:22.314][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:22.315][self$createEntryFromContent] Accession numbers: 64473.
biodb.TRACE[2025-08-30 16:03:22.316][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:22.318][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:22.319][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:22.319][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:22.321][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:22.322][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:22.323][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:22.324][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:22.325][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:22.326][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:22.327][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:22.328][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:22.348][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:22.349][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:22.350][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:22.356][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:22.357][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:22.358][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:22.359][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:22.360][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:22.361][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:22.362][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:22.363][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:22.364][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:22.365][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:22.366][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:22.368][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:22.369][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:22.370][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:22.371][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:22.372][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:22.373][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:22.374][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:22.375][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:22.379][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:22.380][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:22.381][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:22.382][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:03:22.383][private$loadEntries] Creating entries from ids [1]: "75244".
biodb.DEBUG[2025-08-30 16:03:22.384][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-08-30 16:03:22.386][cch$loadFileContent] Trying to load 1 files from cache: [1]: "75244".
biodb.TRACE[2025-08-30 16:03:22.387][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-08-30 16:03:22.388][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-08-30 16:03:22.389][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-30 16:03:22.390][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-08-30 16:03:22.391][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-08-30 16:03:22.392][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-08-30 16:03:22.395][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:22.396][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:22.397][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:22.402][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:22.403][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:22.404][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:22.405][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:03:22.406][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=75244".
biodb.DEBUG[2025-08-30 16:03:22.408][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-08-30 16:03:22.409][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-08-30 16:03:22.411][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=75244".
biodb.TRACE[2025-08-30 16:03:22.767][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=75244).
biodb.DEBUG[2025-08-30 16:03:23.120][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-08-30 16:03:23.124][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/cae81bf9939177869251c540dee6df85.content"
biodb.TRACE[2025-08-30 16:03:23.132][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/cae81bf9939177869251c540dee6df85.request"
biodb.TRACE[2025-08-30 16:03:23.139][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/75244.xml"
biodb.DEBUG[2025-08-30 16:03:23.142][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-08-30 16:03:23.146][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-30 16:03:23.149][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-30 16:03:23.153][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:23.155][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:23.157][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:23.167][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:23.169][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:23.171][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:23.173][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:23.177][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:23.179][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:23.180][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:23.182][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:23.184][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:23.185][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:23.187][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:23.188][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:23.190][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:03:23.191][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:03:23.193][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:23.194][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:23.195][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:03:23.197][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:03:23.198][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:23.200][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:23.201][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:03:23.202][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:03:23.204][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:23.205][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:23.206][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:03:23.207][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:03:23.208][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:23.209][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:23.210][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:03:23.212][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:03:23.213][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:23.214][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:23.215][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:03:23.216][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:03:23.217][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:23.218][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:23.220][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:03:23.221][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:03:23.222][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:23.223][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:23.224][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:03:23.225][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:03:23.226][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:23.227][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:23.228][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:03:23.230][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:03:23.231][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:23.231][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:23.233][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:03:23.234][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:03:23.235][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:23.236][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:23.237][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:03:23.238][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:23.239][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:23.240][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:23.242][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:03:23.243][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:23.244][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:23.245][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:23.246][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:23.247][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:23.248][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:23.249][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:23.250][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:23.251][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:23.252][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:23.253][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:23.254][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:03:23.256][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:03:23.257][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:23.258][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:23.259][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:03:23.260][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:03:23.261][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:23.262][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:23.263][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:03:23.264][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:03:23.265][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:23.266][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:23.267][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:03:23.269][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:03:23.270][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:23.271][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:23.272][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:03:23.273][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:03:23.274][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:23.275][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:23.276][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:03:23.277][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:03:23.278][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:23.279][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:23.280][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:23.281][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:23.282][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:23.283][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:23.284][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:23.285][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:23.286][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:23.287][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:23.288][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:23.289][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:23.290][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:23.291][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:23.292][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:23.293][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:23.293][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:23.294][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:23.295][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:23.296][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:23.298][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:23.299][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:23.299][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:23.300][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:23.301][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:23.302][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:23.303][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:23.304][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:23.305][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:23.306][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:23.307][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:23.308][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:23.309][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:23.310][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:23.311][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:23.312][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:23.313][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:23.314][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:23.315][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:23.316][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:23.317][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:23.318][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:23.319][self$createEntryFromContent] Accession numbers: 75244.
biodb.TRACE[2025-08-30 16:03:23.320][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:23.321][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:23.322][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:23.323][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:23.324][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:23.325][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:23.326][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:23.327][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:23.328][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:23.329][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:23.330][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:23.331][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:23.332][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:23.333][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:23.334][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:23.338][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:23.339][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:23.340][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:23.341][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:03:23.342][private$loadEntries] Creating entries from ids [1]: "75311".
biodb.DEBUG[2025-08-30 16:03:23.343][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-08-30 16:03:23.344][cch$loadFileContent] Trying to load 1 files from cache: [1]: "75311".
biodb.TRACE[2025-08-30 16:03:23.345][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-08-30 16:03:23.346][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-08-30 16:03:23.348][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-30 16:03:23.349][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-08-30 16:03:23.349][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-08-30 16:03:23.350][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-08-30 16:03:23.353][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:23.354][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:23.355][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:23.359][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:23.360][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:23.360][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:23.361][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:03:23.362][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=75311".
biodb.DEBUG[2025-08-30 16:03:23.365][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-08-30 16:03:23.366][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-08-30 16:03:23.367][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=75311".
biodb.TRACE[2025-08-30 16:03:23.702][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=75311).
biodb.DEBUG[2025-08-30 16:03:24.041][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-08-30 16:03:24.046][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/4e5c0f0d646c796bdaff17cc90a3658d.content"
biodb.TRACE[2025-08-30 16:03:24.053][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/4e5c0f0d646c796bdaff17cc90a3658d.request"
biodb.TRACE[2025-08-30 16:03:24.059][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/75311.xml"
biodb.DEBUG[2025-08-30 16:03:24.062][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-08-30 16:03:24.065][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-30 16:03:24.067][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-30 16:03:24.071][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:24.073][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:24.075][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:24.084][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:24.086][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:24.088][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:24.090][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:24.094][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:24.096][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:24.097][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:24.099][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:24.101][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:24.102][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:24.104][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:24.105][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:24.107][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:03:24.108][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:03:24.110][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:24.111][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:24.112][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:03:24.114][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:03:24.115][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:24.116][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:24.117][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:03:24.119][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:03:24.120][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:24.121][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:24.122][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:03:24.123][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:03:24.125][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:24.126][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:24.127][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:03:24.128][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:03:24.129][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:24.130][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:24.131][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:03:24.132][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:03:24.133][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:24.134][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:24.135][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:03:24.136][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:03:24.137][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:24.138][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:24.139][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:03:24.140][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:03:24.141][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:24.142][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:24.154][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:03:24.156][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:03:24.157][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:24.158][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:24.159][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:03:24.160][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:03:24.161][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:24.162][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:24.163][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:03:24.164][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:24.165][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:24.166][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:24.167][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:03:24.168][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:24.169][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:24.170][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:24.171][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:24.172][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:24.173][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:24.174][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:24.175][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:24.176][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:24.177][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:24.178][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:24.179][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:03:24.180][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:03:24.181][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:24.181][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:24.183][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:03:24.184][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:03:24.185][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:24.185][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:24.187][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:03:24.187][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:03:24.188][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:24.189][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:24.190][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:03:24.191][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:03:24.192][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:24.193][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:24.194][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:03:24.195][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:03:24.196][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:24.197][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:24.198][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:03:24.199][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:03:24.200][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:24.201][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:24.202][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:24.203][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:24.204][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:24.205][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:24.206][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:24.207][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:24.208][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:24.209][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:24.210][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:24.211][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:24.212][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:24.212][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:24.213][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:24.214][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:24.215][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:24.216][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:24.217][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:24.218][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:24.219][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:24.220][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:24.221][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:24.222][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:24.223][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:24.224][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:24.225][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:24.226][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:24.227][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:24.228][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:24.229][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:24.230][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:24.231][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:24.232][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:24.232][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:24.233][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:24.234][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:24.235][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:24.236][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:24.237][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:24.238][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:24.239][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:24.240][self$createEntryFromContent] Accession numbers: 75311.
biodb.TRACE[2025-08-30 16:03:24.241][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:24.242][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:24.243][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:24.244][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:24.245][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:24.246][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:24.247][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:24.248][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:24.249][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:24.250][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:24.251][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:24.252][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:24.253][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:24.254][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:24.254][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:24.259][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:24.259][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:24.260][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:24.261][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:03:24.262][private$loadEntries] Creating entries from ids [1]: "75350".
biodb.DEBUG[2025-08-30 16:03:24.263][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-08-30 16:03:24.265][cch$loadFileContent] Trying to load 1 files from cache: [1]: "75350".
biodb.TRACE[2025-08-30 16:03:24.266][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-08-30 16:03:24.267][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-08-30 16:03:24.268][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-30 16:03:24.269][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-08-30 16:03:24.270][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-08-30 16:03:24.271][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-08-30 16:03:24.273][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:24.274][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:24.275][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:24.279][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:24.280][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:24.281][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:24.282][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:03:24.283][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=75350".
biodb.DEBUG[2025-08-30 16:03:24.285][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-08-30 16:03:24.286][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-08-30 16:03:24.288][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=75350".
biodb.TRACE[2025-08-30 16:03:24.625][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=75350).
biodb.DEBUG[2025-08-30 16:03:24.962][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-08-30 16:03:24.967][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/37625fe42e340de84bdcc226ef73c285.content"
biodb.TRACE[2025-08-30 16:03:24.974][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/37625fe42e340de84bdcc226ef73c285.request"
biodb.TRACE[2025-08-30 16:03:24.980][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/75350.xml"
biodb.DEBUG[2025-08-30 16:03:24.983][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-08-30 16:03:24.987][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-30 16:03:24.989][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-30 16:03:24.993][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:24.995][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:24.997][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:25.008][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:25.009][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:25.011][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:25.013][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:25.016][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:25.018][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:25.020][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:25.022][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:25.023][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:25.025][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:25.026][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:25.028][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:25.029][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:03:25.031][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:03:25.032][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:25.033][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:25.035][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:03:25.036][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:03:25.037][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:25.039][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:25.040][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:03:25.041][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:03:25.042][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:25.043][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:25.045][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:03:25.046][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:03:25.047][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:25.048][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:25.049][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:03:25.050][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:03:25.051][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:25.052][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:25.053][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:03:25.054][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:03:25.055][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:25.056][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:25.057][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:03:25.058][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:03:25.059][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:25.060][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:25.061][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:03:25.062][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:03:25.064][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:25.064][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:25.065][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:03:25.066][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:03:25.067][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:25.068][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:25.069][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:03:25.070][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:25.071][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:25.072][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:25.074][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:03:25.075][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:25.076][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:25.076][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:25.078][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:25.079][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:25.080][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:25.081][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:25.082][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:25.083][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:25.084][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:25.085][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:25.086][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:03:25.087][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:03:25.088][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:25.089][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:25.090][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:03:25.091][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:03:25.092][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:25.093][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:25.094][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:03:25.095][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:03:25.096][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:25.097][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:25.098][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:03:25.099][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:03:25.100][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:25.101][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:25.102][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:03:25.103][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:03:25.104][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:25.105][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:25.106][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:03:25.107][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:03:25.108][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:25.109][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:25.110][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:25.111][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:25.112][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:25.113][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:25.114][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:25.115][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:25.116][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:25.117][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:25.118][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:25.119][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:25.120][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:25.121][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:25.122][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:25.123][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:25.124][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:25.125][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:25.126][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:25.127][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:25.128][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:25.129][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:25.130][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:25.131][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:25.132][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:25.133][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:25.134][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:25.135][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:25.136][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:25.137][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:25.138][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:25.139][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:25.140][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:25.141][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:25.142][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:25.143][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:25.144][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:25.145][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:25.146][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:25.147][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:25.148][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:25.149][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:25.150][self$createEntryFromContent] Accession numbers: 75350.
biodb.TRACE[2025-08-30 16:03:25.151][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:25.152][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:25.153][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:25.154][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:25.155][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:25.156][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:25.157][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:25.158][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:25.159][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:25.160][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:25.161][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:25.161][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:25.162][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:25.163][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:25.164][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:25.168][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:25.169][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:25.170][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:25.171][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:03:25.172][private$loadEntries] Creating entries from ids [1]: "87236".
biodb.DEBUG[2025-08-30 16:03:25.173][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-08-30 16:03:25.175][cch$loadFileContent] Trying to load 1 files from cache: [1]: "87236".
biodb.TRACE[2025-08-30 16:03:25.176][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-08-30 16:03:25.177][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-08-30 16:03:25.178][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-30 16:03:25.179][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-08-30 16:03:25.180][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-08-30 16:03:25.181][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-08-30 16:03:25.184][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:25.185][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:25.186][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:25.214][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:25.215][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:25.216][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:25.217][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:03:25.218][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=87236".
biodb.DEBUG[2025-08-30 16:03:25.221][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-08-30 16:03:25.222][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-08-30 16:03:25.223][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=87236".
biodb.TRACE[2025-08-30 16:03:25.561][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=87236).
biodb.DEBUG[2025-08-30 16:03:25.967][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-08-30 16:03:25.972][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/668dc6e1fe28fb2b9645ffb56917cb44.content"
biodb.TRACE[2025-08-30 16:03:25.979][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/668dc6e1fe28fb2b9645ffb56917cb44.request"
biodb.TRACE[2025-08-30 16:03:25.985][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/87236.xml"
biodb.DEBUG[2025-08-30 16:03:25.988][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-08-30 16:03:25.991][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-30 16:03:25.993][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-30 16:03:25.998][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:26.000][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:26.002][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:26.011][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:26.013][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:26.015][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:26.016][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:26.020][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:26.022][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:26.023][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:26.025][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:26.027][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:26.029][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:26.030][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:26.031][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:26.033][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:03:26.034][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:03:26.035][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:26.037][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:26.038][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:03:26.040][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:03:26.041][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:26.042][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:26.043][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:03:26.045][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:03:26.046][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:26.047][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:26.048][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:03:26.049][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:03:26.050][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:26.051][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:26.053][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:03:26.054][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:03:26.055][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:26.056][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:26.057][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:03:26.058][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:03:26.059][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:26.060][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:26.061][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:03:26.062][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:03:26.063][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:26.064][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:26.065][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:03:26.066][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:03:26.067][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:26.068][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:26.069][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:03:26.070][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:03:26.071][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:26.072][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:26.073][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:03:26.074][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:26.075][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:26.076][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:26.077][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:03:26.078][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:26.079][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:26.080][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:26.081][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:26.082][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:26.083][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:26.084][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:26.085][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:26.086][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:26.087][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:26.088][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:26.089][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:03:26.090][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:03:26.091][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:26.092][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:26.093][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:03:26.094][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:03:26.096][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:26.097][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:26.098][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:03:26.099][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:03:26.100][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:26.100][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:26.102][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:03:26.103][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:03:26.104][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:26.104][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:26.105][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:03:26.107][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:03:26.107][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:26.108][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:26.110][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:03:26.111][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:03:26.112][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:26.113][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:26.114][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:26.115][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:26.116][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:26.117][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:26.118][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:26.119][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:26.120][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:26.121][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:26.122][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:26.123][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:26.124][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:26.125][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:26.126][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:26.127][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:26.128][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:26.129][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:26.130][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:26.131][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:26.132][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:26.132][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:26.133][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:26.134][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:26.135][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:26.136][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:26.137][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:26.139][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:26.140][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:26.141][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:26.142][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:26.143][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:26.144][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:26.145][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:26.146][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:26.147][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:26.148][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:26.148][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:26.149][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:26.150][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:26.151][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:26.153][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:26.154][self$createEntryFromContent] Accession numbers: 87236.
biodb.TRACE[2025-08-30 16:03:26.155][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:26.156][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:26.157][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:26.158][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:26.159][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:26.160][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:26.161][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:26.162][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:26.163][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:26.164][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:26.164][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:26.165][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:26.167][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:26.168][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:26.168][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:26.173][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:26.174][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:26.175][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:26.175][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:03:26.176][private$loadEntries] Creating entries from ids [1]: "132193".
biodb.DEBUG[2025-08-30 16:03:26.177][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-08-30 16:03:26.179][cch$loadFileContent] Trying to load 1 files from cache: [1]: "132193".
biodb.TRACE[2025-08-30 16:03:26.180][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-08-30 16:03:26.182][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-08-30 16:03:26.183][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-30 16:03:26.184][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-08-30 16:03:26.185][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-08-30 16:03:26.186][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-08-30 16:03:26.188][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:26.189][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:26.190][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:26.194][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:26.195][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:26.196][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:26.197][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:03:26.198][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=132193".
biodb.DEBUG[2025-08-30 16:03:26.201][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-08-30 16:03:26.202][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-08-30 16:03:26.203][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=132193".
biodb.TRACE[2025-08-30 16:03:26.537][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=132193).
biodb.DEBUG[2025-08-30 16:03:26.878][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-08-30 16:03:26.883][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/485d54e768e8b3a26016a2841d39a83c.content"
biodb.TRACE[2025-08-30 16:03:26.890][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/485d54e768e8b3a26016a2841d39a83c.request"
biodb.TRACE[2025-08-30 16:03:26.897][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/132193.xml"
biodb.DEBUG[2025-08-30 16:03:26.900][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-08-30 16:03:26.903][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-30 16:03:26.905][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-30 16:03:26.910][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:26.912][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:26.914][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:26.924][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:26.926][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:26.927][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:26.929][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:26.933][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:26.934][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:26.936][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:26.938][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:26.940][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:26.941][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:26.943][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:26.944][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:26.946][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:03:26.947][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:03:26.948][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:26.949][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:26.951][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:03:26.953][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:03:26.954][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:26.955][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:26.956][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:03:26.957][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:03:26.959][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:26.960][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:26.961][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:03:26.962][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:03:26.963][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:26.964][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:26.966][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:03:26.967][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:03:26.968][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:26.969][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:26.970][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:03:26.971][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:03:26.972][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:26.973][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:26.974][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:03:26.975][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:03:26.976][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:26.977][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:26.978][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:03:26.979][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:03:26.980][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:26.981][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:26.982][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:03:26.983][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:03:26.984][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:26.985][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:26.986][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:03:26.987][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:26.988][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:26.989][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:26.990][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:03:26.991][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:26.992][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:26.993][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:26.994][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:26.995][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:26.996][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:26.997][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:26.998][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:26.999][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:27.000][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:27.001][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:27.002][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:03:27.003][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:03:27.004][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:27.005][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:27.007][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:03:27.008][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:03:27.009][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:27.010][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:27.011][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:03:27.012][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:03:27.013][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:27.014][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:27.015][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:03:27.016][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:03:27.017][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:27.018][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:27.019][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:03:27.020][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:03:27.021][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:27.022][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:27.023][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:03:27.024][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:03:27.025][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:27.026][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:27.027][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:27.028][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:27.029][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:27.030][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:27.031][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:27.032][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:27.033][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:27.034][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:27.035][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:27.036][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:27.048][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:27.049][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:27.051][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:27.052][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:27.053][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:27.054][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:27.055][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:27.056][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:27.057][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:27.057][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:27.058][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:27.059][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:27.060][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:27.061][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:27.062][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:27.063][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:27.064][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:27.065][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:27.066][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:27.067][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:27.068][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:27.069][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:27.070][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:27.071][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:27.072][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:27.073][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:27.074][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:27.075][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:27.076][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:27.077][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:27.078][self$createEntryFromContent] Accession numbers: 132193.
biodb.TRACE[2025-08-30 16:03:27.079][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:27.080][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:27.081][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:27.082][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:27.083][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:27.084][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:27.085][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:27.086][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:27.087][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:27.088][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:27.088][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:27.089][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:27.090][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:27.091][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:27.092][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:27.096][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:27.097][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:27.098][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:27.099][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:03:27.100][private$loadEntries] Creating entries from ids [1]: "146002".
biodb.DEBUG[2025-08-30 16:03:27.101][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-08-30 16:03:27.102][cch$loadFileContent] Trying to load 1 files from cache: [1]: "146002".
biodb.TRACE[2025-08-30 16:03:27.104][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-08-30 16:03:27.105][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-08-30 16:03:27.106][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-30 16:03:27.107][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-08-30 16:03:27.108][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-08-30 16:03:27.109][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-08-30 16:03:27.111][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:27.112][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:27.113][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:27.117][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:27.118][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:27.119][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:27.119][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:03:27.121][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=146002".
biodb.DEBUG[2025-08-30 16:03:27.123][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-08-30 16:03:27.124][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-08-30 16:03:27.126][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=146002".
biodb.TRACE[2025-08-30 16:03:27.466][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=146002).
biodb.DEBUG[2025-08-30 16:03:27.819][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-08-30 16:03:27.823][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/f6f6aad2df3f38cd332b2e82fd62eca2.content"
biodb.TRACE[2025-08-30 16:03:27.829][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/f6f6aad2df3f38cd332b2e82fd62eca2.request"
biodb.TRACE[2025-08-30 16:03:27.833][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/146002.xml"
biodb.DEBUG[2025-08-30 16:03:27.835][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-08-30 16:03:27.837][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-30 16:03:27.839][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-30 16:03:27.842][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:27.843][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:27.845][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:27.853][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:27.854][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:27.856][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:27.857][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:27.861][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:27.863][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:27.864][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:27.866][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:27.868][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:27.870][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:27.871][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:27.872][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:27.874][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:03:27.875][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:03:27.876][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:27.878][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:27.880][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:03:27.881][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:03:27.882][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:27.883][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:27.885][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:03:27.886][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:03:27.887][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:27.888][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:27.889][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:03:27.890][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:03:27.891][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:27.892][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:27.894][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:03:27.895][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:03:27.896][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:27.897][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:27.898][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:03:27.899][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:03:27.900][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:27.901][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:27.902][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:03:27.903][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:03:27.904][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:27.905][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:27.906][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:03:27.907][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:03:27.908][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:27.909][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:27.910][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:03:27.911][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:03:27.912][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:27.913][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:27.914][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:03:27.915][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:27.916][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:27.917][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:27.918][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:03:27.919][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:27.920][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:27.921][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:27.923][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:27.924][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:27.924][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:27.925][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:27.927][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:27.928][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:27.928][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:27.929][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:27.930][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:03:27.931][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:03:27.932][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:27.933][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:27.935][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:03:27.936][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:03:27.937][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:27.938][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:27.939][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:03:27.940][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:03:27.941][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:27.942][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:27.943][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:03:27.944][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:03:27.945][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:27.946][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:27.947][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:03:27.948][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:03:27.949][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:27.950][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:27.951][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:03:27.952][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:03:27.953][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:27.954][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:27.955][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:27.956][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:27.957][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:27.958][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:27.959][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:27.960][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:27.961][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:27.962][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:27.962][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:27.963][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:27.965][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:27.966][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:27.967][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:27.968][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:27.969][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:27.969][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:27.970][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:27.971][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:27.972][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:27.973][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:27.974][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:27.975][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:27.976][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:27.977][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:27.978][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:27.979][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:27.980][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:27.981][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:27.982][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:27.983][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:27.984][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:27.985][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:27.986][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:27.987][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:27.988][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:27.989][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:27.990][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:27.991][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:27.992][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:27.993][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:27.994][self$createEntryFromContent] Accession numbers: 146002.
biodb.TRACE[2025-08-30 16:03:27.995][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:27.996][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:27.997][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:27.998][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:27.999][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:28.000][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:28.001][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:28.002][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:28.003][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:28.004][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:28.005][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:28.005][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:28.007][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:28.008][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:28.009][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:28.013][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:28.014][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:28.014][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:28.015][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:03:28.016][private$loadEntries] Creating entries from ids [1]: "65641".
biodb.DEBUG[2025-08-30 16:03:28.017][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-08-30 16:03:28.019][cch$loadFileContent] Trying to load 1 files from cache: [1]: "65641".
biodb.TRACE[2025-08-30 16:03:28.020][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-08-30 16:03:28.021][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-08-30 16:03:28.022][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-30 16:03:28.023][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-08-30 16:03:28.024][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-08-30 16:03:28.025][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-08-30 16:03:28.028][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:28.029][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:28.029][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:28.033][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:28.034][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:28.035][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:28.036][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:03:28.038][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=65641".
biodb.DEBUG[2025-08-30 16:03:28.040][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-08-30 16:03:28.041][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-08-30 16:03:28.042][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=65641".
biodb.TRACE[2025-08-30 16:03:28.381][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=65641).
biodb.DEBUG[2025-08-30 16:03:28.723][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-08-30 16:03:28.727][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/cb3af00d6d6a96efc61a93d5105272fc.content"
biodb.TRACE[2025-08-30 16:03:28.735][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/cb3af00d6d6a96efc61a93d5105272fc.request"
biodb.TRACE[2025-08-30 16:03:28.741][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/65641.xml"
biodb.DEBUG[2025-08-30 16:03:28.744][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-08-30 16:03:28.747][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-30 16:03:28.750][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-30 16:03:28.754][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:28.756][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:28.758][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:28.768][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:28.769][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:28.771][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:28.773][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:28.777][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:28.779][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:28.781][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:28.782][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:28.784][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:28.785][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:28.787][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:28.788][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:28.790][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:03:28.792][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:03:28.793][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:28.794][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:28.795][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:03:28.797][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:03:28.798][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:28.799][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:28.800][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:03:28.802][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:03:28.803][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:28.804][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:28.806][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:03:28.807][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:03:28.808][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:28.809][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:28.810][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:03:28.811][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:03:28.824][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:28.825][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:28.826][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:03:28.827][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:03:28.828][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:28.829][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:28.830][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:03:28.831][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:03:28.832][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:28.833][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:28.834][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:03:28.835][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:03:28.836][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:28.837][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:28.838][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:03:28.839][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:03:28.840][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:28.841][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:28.842][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:03:28.843][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:28.844][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:28.845][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:28.847][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:03:28.848][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:28.848][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:28.849][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:28.850][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:28.851][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:28.852][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:28.853][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:28.854][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:28.855][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:28.856][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:28.857][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:28.858][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:03:28.859][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:03:28.860][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:28.861][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:28.863][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:03:28.864][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:03:28.864][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:28.865][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:28.866][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:03:28.867][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:03:28.868][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:28.869][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:28.870][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:03:28.871][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:03:28.872][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:28.873][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:28.874][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:03:28.875][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:03:28.876][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:28.877][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:28.878][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:03:28.879][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:03:28.880][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:28.881][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:28.882][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:28.883][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:28.884][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:28.885][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:28.886][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:28.887][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:28.888][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:28.889][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:28.890][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:28.891][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:28.892][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:28.893][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:28.894][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:28.895][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:28.896][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:28.897][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:28.898][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:28.899][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:28.900][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:28.901][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:28.902][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:28.903][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:28.904][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:28.905][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:28.906][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:28.907][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:28.908][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:28.909][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:28.910][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:28.911][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:28.912][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:28.913][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:28.914][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:28.915][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:28.916][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:28.917][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:28.918][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:28.919][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:28.920][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:28.921][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:28.922][self$createEntryFromContent] Accession numbers: 65641.
biodb.TRACE[2025-08-30 16:03:28.923][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:28.924][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:28.925][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:28.926][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:28.927][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:28.928][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:28.928][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:28.929][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:28.930][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:28.932][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:28.933][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:28.934][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:28.935][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:28.935][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:28.936][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:28.941][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:28.941][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:28.942][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:28.943][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:03:28.944][private$loadEntries] Creating entries from ids [1]: "144071".
biodb.DEBUG[2025-08-30 16:03:28.945][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-08-30 16:03:28.947][cch$loadFileContent] Trying to load 1 files from cache: [1]: "144071".
biodb.TRACE[2025-08-30 16:03:28.948][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-08-30 16:03:28.949][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-08-30 16:03:28.950][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-30 16:03:28.951][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-08-30 16:03:28.952][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-08-30 16:03:28.953][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-08-30 16:03:28.955][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:28.956][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:28.957][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:28.961][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:28.962][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:28.963][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:28.964][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:03:28.965][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=144071".
biodb.DEBUG[2025-08-30 16:03:28.967][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-08-30 16:03:28.968][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-08-30 16:03:28.970][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=144071".
biodb.TRACE[2025-08-30 16:03:29.311][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=144071).
biodb.DEBUG[2025-08-30 16:03:29.649][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-08-30 16:03:29.654][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/147c6b10a8e09e725fbbb250103f039d.content"
biodb.TRACE[2025-08-30 16:03:29.662][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/147c6b10a8e09e725fbbb250103f039d.request"
biodb.TRACE[2025-08-30 16:03:29.668][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/144071.xml"
biodb.DEBUG[2025-08-30 16:03:29.671][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-08-30 16:03:29.674][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-30 16:03:29.677][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-30 16:03:29.680][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:29.683][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:29.685][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:29.695][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:29.697][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:29.698][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:29.700][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:29.704][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:29.706][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:29.707][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:29.709][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:29.711][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:29.712][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:29.714][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:29.715][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:29.717][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:03:29.718][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:03:29.720][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:29.721][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:29.722][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:03:29.724][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:03:29.725][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:29.726][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:29.727][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:03:29.729][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:03:29.730][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:29.731][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:29.733][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:03:29.734][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:03:29.735][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:29.736][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:29.737][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:03:29.738][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:03:29.739][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:29.740][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:29.741][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:03:29.742][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:03:29.743][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:29.744][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:29.745][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:03:29.746][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:03:29.747][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:29.748][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:29.749][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:03:29.750][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:03:29.751][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:29.752][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:29.753][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:03:29.754][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:03:29.755][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:29.756][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:29.757][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:03:29.759][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:29.759][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:29.760][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:29.761][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:03:29.762][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:29.763][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:29.764][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:29.765][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:29.766][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:29.767][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:29.768][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:29.769][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:29.771][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:29.772][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:29.773][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:29.774][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:03:29.775][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:03:29.776][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:29.776][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:29.778][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:03:29.779][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:03:29.780][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:29.781][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:29.782][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:03:29.783][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:03:29.784][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:29.785][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:29.786][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:03:29.787][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:03:29.788][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:29.789][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:29.790][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:03:29.791][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:03:29.792][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:29.793][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:29.794][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:03:29.795][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:03:29.796][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:29.797][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:29.798][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:29.799][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:29.800][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:29.801][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:29.802][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:29.803][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:29.804][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:29.805][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:29.806][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:29.807][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:29.808][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:29.809][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:29.810][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:29.811][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:29.812][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:29.813][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:29.814][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:29.815][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:29.816][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:29.817][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:29.818][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:29.819][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:29.819][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:29.820][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:29.821][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:29.823][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:29.823][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:29.824][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:29.825][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:29.826][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:29.828][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:29.829][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:29.830][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:29.831][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:29.831][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:29.832][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:29.833][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:29.834][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:29.835][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:29.836][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:29.837][self$createEntryFromContent] Accession numbers: 144071.
biodb.TRACE[2025-08-30 16:03:29.838][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:29.839][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:29.840][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:29.841][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:29.842][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:29.843][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:29.844][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:29.845][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:29.846][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:29.847][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:29.848][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:29.849][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:29.850][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:29.851][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:29.852][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:29.856][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:29.857][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:29.858][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:29.859][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:29.860][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:29.861][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:29.862][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:29.863][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:29.864][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:29.865][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:29.866][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:29.867][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:29.868][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:29.878][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:29.879][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:29.880][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:29.881][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:29.882][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:29.882][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:29.887][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:29.888][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:29.888][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:29.889][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:29.890][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:29.891][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:29.892][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:29.893][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:29.894][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:29.895][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:29.896][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:29.897][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:29.898][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:29.899][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:29.900][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:29.901][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:29.902][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:29.903][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:29.904][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:29.908][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:29.908][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:29.909][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:29.910][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:29.911][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:29.912][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:29.913][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:29.914][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:29.915][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:29.916][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:29.917][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:29.918][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:29.919][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:29.920][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:29.921][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:29.922][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:29.923][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:29.924][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:29.924][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:29.928][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:29.929][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:29.930][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:29.931][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:29.932][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:29.933][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:29.934][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:29.935][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:29.936][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:29.937][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:29.938][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:29.939][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:29.940][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:29.941][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:29.942][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:29.943][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:29.944][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:29.945][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:29.945][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:29.949][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:29.950][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:29.951][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:29.952][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:29.953][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:29.954][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:29.955][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:29.956][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:29.957][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:29.958][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:29.959][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:29.960][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:29.961][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:29.962][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:29.963][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:29.964][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:29.965][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:29.966][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:29.966][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:29.971][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:29.971][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:29.972][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:29.973][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:29.974][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:29.975][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:29.976][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:29.977][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:29.978][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:29.979][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:29.980][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:29.981][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:29.982][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:29.983][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:29.984][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:29.985][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:29.986][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:29.987][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:29.988][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:29.992][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:29.993][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:29.993][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:29.994][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:03:29.995][private$loadEntries] Creating entries from ids [1]: "168650".
biodb.DEBUG[2025-08-30 16:03:29.996][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-08-30 16:03:29.998][cch$loadFileContent] Trying to load 1 files from cache: [1]: "168650".
biodb.TRACE[2025-08-30 16:03:29.999][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-08-30 16:03:30.000][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-08-30 16:03:30.001][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-30 16:03:30.002][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-08-30 16:03:30.003][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-08-30 16:03:30.004][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-08-30 16:03:30.007][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:30.008][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:30.009][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:30.012][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:30.014][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:30.015][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:30.015][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:03:30.016][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=168650".
biodb.DEBUG[2025-08-30 16:03:30.019][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-08-30 16:03:30.020][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-08-30 16:03:30.021][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=168650".
biodb.TRACE[2025-08-30 16:03:30.359][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=168650).
biodb.DEBUG[2025-08-30 16:03:30.691][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-08-30 16:03:30.696][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/fbd7acd341e86313aeb547b3d6d3201b.content"
biodb.TRACE[2025-08-30 16:03:30.703][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/fbd7acd341e86313aeb547b3d6d3201b.request"
biodb.TRACE[2025-08-30 16:03:30.708][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/168650.xml"
biodb.DEBUG[2025-08-30 16:03:30.710][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-08-30 16:03:30.714][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-30 16:03:30.716][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-30 16:03:30.719][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:30.721][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:30.723][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:30.733][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:30.734][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:30.736][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:30.738][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:30.742][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:30.743][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:30.745][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:30.746][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:30.748][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:30.750][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:30.751][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:30.752][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:30.754][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:03:30.756][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:03:30.757][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:30.758][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:30.760][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:03:30.761][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:03:30.762][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:30.764][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:30.765][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:03:30.766][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:03:30.767][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:30.768][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:30.770][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:03:30.771][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:03:30.772][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:30.773][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:30.774][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:03:30.776][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:03:30.776][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:30.777][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:30.779][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:03:30.780][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:03:30.781][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:30.782][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:30.783][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:03:30.784][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:03:30.785][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:30.786][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:30.787][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:03:30.788][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:03:30.789][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:30.790][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:30.791][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:03:30.792][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:03:30.793][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:30.794][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:30.795][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:03:30.796][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:30.797][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:30.798][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:30.799][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:03:30.800][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:30.801][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:30.802][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:30.803][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:30.804][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:30.805][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:30.806][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:30.807][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:30.808][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:30.809][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:30.810][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:30.811][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:03:30.812][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:03:30.813][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:30.814][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:30.815][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:03:30.816][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:03:30.817][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:30.818][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:30.819][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:03:30.820][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:03:30.821][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:30.822][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:30.823][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:03:30.824][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:03:30.825][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:30.826][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:30.827][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:03:30.828][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:03:30.829][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:30.830][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:30.831][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:03:30.832][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:03:30.833][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:30.834][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:30.835][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:30.836][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:30.837][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:30.838][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:30.839][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:30.840][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:30.841][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:30.842][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:30.843][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:30.844][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:30.845][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:30.846][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:30.847][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:30.848][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:30.849][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:30.850][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:30.851][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:30.852][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:30.853][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:30.854][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:30.855][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:30.856][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:30.857][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:30.858][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:30.859][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:30.860][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:30.861][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:30.862][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:30.863][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:30.864][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:30.865][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:30.866][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:30.867][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:30.868][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:30.869][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:30.870][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:30.871][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:30.872][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:30.873][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:30.874][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:30.875][self$createEntryFromContent] Accession numbers: 168650.
biodb.TRACE[2025-08-30 16:03:30.876][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:30.877][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:30.878][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:30.879][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:30.880][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:30.881][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:30.881][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:30.882][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:30.884][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:30.885][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:30.886][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:30.887][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:30.888][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:30.888][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:30.889][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:30.893][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:30.894][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:30.895][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:30.896][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:30.897][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:30.899][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:30.900][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:30.900][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:30.901][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:30.902][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:30.903][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:30.904][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:30.914][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:30.915][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:30.916][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:30.917][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:30.918][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:30.919][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:30.920][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:30.924][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:30.925][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:30.926][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:30.927][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:03:30.928][private$loadEntries] Creating entries from ids [1]: "169305".
biodb.DEBUG[2025-08-30 16:03:30.929][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-08-30 16:03:30.931][cch$loadFileContent] Trying to load 1 files from cache: [1]: "169305".
biodb.TRACE[2025-08-30 16:03:30.932][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-08-30 16:03:30.933][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-08-30 16:03:30.934][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-30 16:03:30.935][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-08-30 16:03:30.936][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-08-30 16:03:30.937][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-08-30 16:03:30.940][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:30.941][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:30.943][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:30.947][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:30.948][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:30.948][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:30.949][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:03:30.950][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=169305".
biodb.DEBUG[2025-08-30 16:03:30.953][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-08-30 16:03:30.954][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-08-30 16:03:30.956][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=169305".
biodb.TRACE[2025-08-30 16:03:31.299][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=169305).
biodb.DEBUG[2025-08-30 16:03:31.636][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-08-30 16:03:31.641][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/5eab934e4cfb5514f373385a6170c282.content"
biodb.TRACE[2025-08-30 16:03:31.648][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/5eab934e4cfb5514f373385a6170c282.request"
biodb.TRACE[2025-08-30 16:03:31.653][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/169305.xml"
biodb.DEBUG[2025-08-30 16:03:31.657][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-08-30 16:03:31.659][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-30 16:03:31.662][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-30 16:03:31.666][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:31.668][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:31.670][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:31.679][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:31.681][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:31.683][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:31.685][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:31.688][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:31.690][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:31.692][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:31.693][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:31.695][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:31.697][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:31.698][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:31.700][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:31.701][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:03:31.703][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:03:31.704][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:31.705][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:31.707][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:03:31.708][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:03:31.709][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:31.710][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:31.712][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:03:31.713][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:03:31.714][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:31.715][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:31.717][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:03:31.718][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:03:31.719][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:31.720][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:31.721][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:03:31.722][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:03:31.723][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:31.724][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:31.726][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:03:31.727][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:03:31.728][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:31.729][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:31.730][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:03:31.731][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:03:31.732][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:31.732][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:31.734][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:03:31.735][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:03:31.736][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:31.737][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:31.738][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:03:31.739][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:03:31.740][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:31.741][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:31.742][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:03:31.743][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:31.744][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:31.745][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:31.746][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:03:31.747][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:31.748][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:31.749][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:31.750][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:31.751][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:31.751][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:31.752][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:31.754][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:31.755][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:31.756][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:31.756][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:31.758][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:03:31.759][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:03:31.759][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:31.760][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:31.762][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:03:31.763][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:03:31.764][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:31.764][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:31.766][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:03:31.767][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:03:31.767][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:31.768][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:31.770][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:03:31.771][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:03:31.772][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:31.772][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:31.774][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:03:31.775][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:03:31.775][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:31.776][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:31.777][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:03:31.778][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:03:31.779][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:31.780][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:31.781][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:31.782][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:31.783][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:31.784][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:31.785][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:31.786][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:31.787][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:31.788][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:31.789][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:31.790][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:31.791][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:31.792][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:31.793][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:31.794][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:31.795][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:31.796][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:31.797][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:31.798][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:31.799][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:31.800][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:31.801][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:31.802][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:31.803][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:31.803][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:31.804][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:31.805][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:31.806][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:31.807][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:31.808][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:31.809][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:31.810][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:31.811][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:31.812][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:31.813][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:31.814][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:31.815][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:31.816][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:31.817][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:31.818][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:31.819][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:31.820][self$createEntryFromContent] Accession numbers: 169305.
biodb.TRACE[2025-08-30 16:03:31.821][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:31.822][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:31.823][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:31.824][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:31.825][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:31.826][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:31.827][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:31.828][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:31.829][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:31.830][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:31.830][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:31.831][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:31.832][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:31.833][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:31.834][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:31.838][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:31.839][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:31.840][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:31.841][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:03:31.842][private$loadEntries] Creating entries from ids [1]: "176869".
biodb.DEBUG[2025-08-30 16:03:31.843][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-08-30 16:03:31.844][cch$loadFileContent] Trying to load 1 files from cache: [1]: "176869".
biodb.TRACE[2025-08-30 16:03:31.846][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-08-30 16:03:31.847][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-08-30 16:03:31.848][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-30 16:03:31.849][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-08-30 16:03:31.850][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-08-30 16:03:31.851][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-08-30 16:03:31.853][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:31.854][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:31.855][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:31.859][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:31.860][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:31.861][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:31.861][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:03:31.863][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=176869".
biodb.DEBUG[2025-08-30 16:03:31.865][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-08-30 16:03:31.866][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-08-30 16:03:31.867][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=176869".
biodb.TRACE[2025-08-30 16:03:32.207][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=176869).
biodb.DEBUG[2025-08-30 16:03:32.542][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-08-30 16:03:32.546][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/f2c477fa42863c662724815d047e8c32.content"
biodb.TRACE[2025-08-30 16:03:32.553][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/f2c477fa42863c662724815d047e8c32.request"
biodb.TRACE[2025-08-30 16:03:32.559][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/176869.xml"
biodb.DEBUG[2025-08-30 16:03:32.562][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-08-30 16:03:32.565][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-30 16:03:32.568][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-30 16:03:32.571][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:32.573][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:32.576][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:32.585][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:32.587][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:32.589][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:32.590][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:32.594][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:32.596][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:32.598][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:32.599][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:32.601][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:32.602][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:32.604][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:32.605][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:32.607][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:03:32.608][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:03:32.610][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:32.611][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:32.613][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:03:32.614][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:03:32.615][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:32.616][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:32.617][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:03:32.619][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:03:32.620][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:32.621][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:32.622][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:03:32.624][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:03:32.625][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:32.626][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:32.627][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:03:32.628][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:03:32.629][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:32.630][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:32.631][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:03:32.632][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:03:32.633][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:32.634][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:32.635][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:03:32.636][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:03:32.637][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:32.638][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:32.639][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:03:32.640][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:03:32.641][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:32.642][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:32.643][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:03:32.644][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:03:32.645][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:32.646][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:32.647][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:03:32.648][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:32.649][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:32.650][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:32.651][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:03:32.652][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:32.653][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:32.654][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:32.655][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:32.656][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:32.657][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:32.658][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:32.659][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:32.660][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:32.661][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:32.662][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:32.663][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:03:32.664][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:03:32.665][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:32.677][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:32.679][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:03:32.680][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:03:32.681][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:32.682][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:32.683][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:03:32.684][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:03:32.685][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:32.686][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:32.687][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:03:32.688][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:03:32.689][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:32.690][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:32.691][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:03:32.692][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:03:32.693][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:32.693][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:32.694][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:03:32.695][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:03:32.696][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:32.697][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:32.699][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:32.699][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:32.700][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:32.701][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:32.702][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:32.703][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:32.704][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:32.705][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:32.706][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:32.707][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:32.708][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:32.709][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:32.710][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:32.711][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:32.712][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:32.713][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:32.714][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:32.715][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:32.715][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:32.716][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:32.717][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:32.718][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:32.719][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:32.720][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:32.721][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:32.722][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:32.723][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:32.724][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:32.725][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:32.726][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:32.727][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:32.728][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:32.729][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:32.730][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:32.731][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:32.732][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:32.733][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:32.734][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:32.734][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:32.735][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:32.736][self$createEntryFromContent] Accession numbers: 176869.
biodb.TRACE[2025-08-30 16:03:32.737][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:32.738][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:32.739][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:32.740][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:32.741][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:32.742][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:32.743][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:32.744][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:32.745][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:32.746][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:32.747][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:32.748][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:32.749][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:32.749][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:32.750][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:32.754][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:32.755][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:32.756][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:32.757][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:03:32.758][private$loadEntries] Creating entries from ids [1]: "185696".
biodb.DEBUG[2025-08-30 16:03:32.759][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-08-30 16:03:32.761][cch$loadFileContent] Trying to load 1 files from cache: [1]: "185696".
biodb.TRACE[2025-08-30 16:03:32.762][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-08-30 16:03:32.763][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-08-30 16:03:32.764][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-30 16:03:32.765][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-08-30 16:03:32.766][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-08-30 16:03:32.767][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-08-30 16:03:32.769][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:32.770][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:32.771][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:32.775][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:32.776][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:32.777][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:32.778][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:03:32.779][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=185696".
biodb.DEBUG[2025-08-30 16:03:32.781][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-08-30 16:03:32.782][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-08-30 16:03:32.784][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=185696".
biodb.TRACE[2025-08-30 16:03:33.123][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=185696).
biodb.DEBUG[2025-08-30 16:03:33.460][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-08-30 16:03:33.465][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/030ac759c83231dbd7b7d6c83788888c.content"
biodb.TRACE[2025-08-30 16:03:33.472][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/030ac759c83231dbd7b7d6c83788888c.request"
biodb.TRACE[2025-08-30 16:03:33.477][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/185696.xml"
biodb.DEBUG[2025-08-30 16:03:33.480][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-08-30 16:03:33.483][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-30 16:03:33.486][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-30 16:03:33.490][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:33.492][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:33.494][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:33.503][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:33.505][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:33.507][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:33.509][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:33.513][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:33.515][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:33.516][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:33.518][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:33.519][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:33.521][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:33.522][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:33.524][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:33.525][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:03:33.527][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:03:33.528][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:33.529][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:33.531][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:03:33.532][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:03:33.534][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:33.535][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:33.536][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:03:33.537][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:03:33.538][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:33.540][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:33.541][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:03:33.542][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:03:33.543][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:33.544][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:33.546][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:03:33.547][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:03:33.548][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:33.549][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:33.550][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:03:33.551][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:03:33.552][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:33.553][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:33.554][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:03:33.555][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:03:33.556][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:33.557][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:33.558][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:03:33.559][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:03:33.560][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:33.561][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:33.562][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:03:33.563][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:03:33.564][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:33.565][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:33.566][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:03:33.567][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:33.568][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:33.569][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:33.570][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:03:33.571][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:33.572][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:33.573][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:33.574][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:33.575][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:33.576][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:33.577][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:33.578][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:33.579][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:33.580][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:33.581][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:33.582][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:03:33.583][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:03:33.584][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:33.585][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:33.586][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:03:33.587][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:03:33.588][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:33.589][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:33.590][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:03:33.591][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:03:33.592][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:33.592][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:33.594][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:03:33.595][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:03:33.596][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:33.596][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:33.598][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:03:33.599][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:03:33.600][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:33.600][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:33.602][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:03:33.603][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:03:33.603][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:33.604][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:33.605][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:33.606][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:33.607][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:33.608][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:33.609][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:33.610][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:33.611][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:33.612][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:33.613][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:33.614][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:33.615][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:33.616][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:33.617][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:33.618][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:33.619][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:33.620][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:33.621][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:33.622][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:33.623][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:33.624][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:33.624][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:33.626][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:33.627][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:33.627][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:33.628][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:33.629][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:33.630][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:33.631][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:33.632][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:33.633][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:33.634][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:33.635][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:33.636][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:33.637][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:33.638][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:33.639][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:33.640][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:33.641][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:33.642][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:33.643][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:33.644][self$createEntryFromContent] Accession numbers: 185696.
biodb.TRACE[2025-08-30 16:03:33.645][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:33.646][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:33.647][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:33.648][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:33.649][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:33.650][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:33.651][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:33.651][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:33.652][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:33.653][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:33.654][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:33.655][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:33.656][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:33.657][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:33.658][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:33.662][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:33.663][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:33.664][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:33.665][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:03:33.666][private$loadEntries] Creating entries from ids [1]: "190762".
biodb.DEBUG[2025-08-30 16:03:33.667][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-08-30 16:03:33.668][cch$loadFileContent] Trying to load 1 files from cache: [1]: "190762".
biodb.TRACE[2025-08-30 16:03:33.669][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-08-30 16:03:33.670][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-08-30 16:03:33.671][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-30 16:03:33.672][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-08-30 16:03:33.673][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-08-30 16:03:33.674][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-08-30 16:03:33.677][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:33.678][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:33.678][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:33.683][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:33.683][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:33.684][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:33.685][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:03:33.686][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=190762".
biodb.DEBUG[2025-08-30 16:03:33.689][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-08-30 16:03:33.690][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-08-30 16:03:33.691][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=190762".
biodb.TRACE[2025-08-30 16:03:34.036][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=190762).
biodb.DEBUG[2025-08-30 16:03:34.374][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-08-30 16:03:34.379][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/fa9da4de7d7dc0d4458ab1ff7bbbbda0.content"
biodb.TRACE[2025-08-30 16:03:34.386][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/fa9da4de7d7dc0d4458ab1ff7bbbbda0.request"
biodb.TRACE[2025-08-30 16:03:34.391][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/190762.xml"
biodb.DEBUG[2025-08-30 16:03:34.395][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-08-30 16:03:34.398][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-30 16:03:34.400][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-30 16:03:34.404][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:34.406][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:34.408][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:34.434][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:34.436][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:34.437][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:34.438][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:34.441][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:34.443][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:34.444][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:34.445][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:34.447][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:34.448][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:34.449][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:34.450][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:34.452][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:03:34.453][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:03:34.454][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:34.455][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:34.456][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:03:34.457][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:03:34.458][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:34.459][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:34.461][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:03:34.462][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:03:34.463][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:34.464][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:34.465][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:03:34.466][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:03:34.467][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:34.468][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:34.469][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:03:34.470][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:03:34.471][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:34.472][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:34.473][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:03:34.474][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:03:34.475][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:34.475][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:34.477][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:03:34.478][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:03:34.478][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:34.479][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:34.480][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:03:34.481][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:03:34.482][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:34.483][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:34.484][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:03:34.485][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:03:34.486][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:34.487][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:34.488][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:03:34.489][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:34.490][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:34.491][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:34.492][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:03:34.493][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:34.494][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:34.495][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:34.496][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:34.497][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:34.498][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:34.499][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:34.500][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:34.501][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:34.502][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:34.503][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:34.504][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:03:34.505][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:03:34.506][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:34.507][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:34.508][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:03:34.509][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:03:34.510][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:34.511][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:34.512][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:03:34.513][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:03:34.514][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:34.515][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:34.516][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:03:34.517][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:03:34.518][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:34.518][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:34.519][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:03:34.521][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:03:34.522][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:34.522][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:34.524][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:03:34.525][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:03:34.525][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:34.526][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:34.527][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:34.528][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:34.529][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:34.530][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:34.531][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:34.532][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:34.533][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:34.534][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:34.535][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:34.536][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:34.537][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:34.538][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:34.539][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:34.540][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:34.541][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:34.542][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:34.543][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:34.544][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:34.545][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:34.546][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:34.547][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:34.548][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:34.549][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:34.550][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:34.551][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:34.552][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:34.553][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:34.553][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:34.555][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:34.556][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:34.556][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:34.557][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:34.558][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:34.559][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:34.560][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:34.561][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:34.562][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:34.563][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:34.564][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:34.565][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:34.566][self$createEntryFromContent] Accession numbers: 190762.
biodb.TRACE[2025-08-30 16:03:34.567][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:34.568][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:34.569][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:34.570][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:34.571][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:34.572][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:34.573][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:34.574][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:34.575][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:34.576][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:34.577][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:34.578][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:34.579][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:34.580][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:34.580][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:34.585][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:34.585][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:34.586][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:34.587][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:03:34.588][private$loadEntries] Creating entries from ids [1]: "193176".
biodb.DEBUG[2025-08-30 16:03:34.589][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-08-30 16:03:34.591][cch$loadFileContent] Trying to load 1 files from cache: [1]: "193176".
biodb.TRACE[2025-08-30 16:03:34.592][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-08-30 16:03:34.593][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-08-30 16:03:34.594][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-30 16:03:34.595][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-08-30 16:03:34.596][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-08-30 16:03:34.597][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-08-30 16:03:34.599][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:34.600][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:34.601][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:34.605][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:34.606][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:34.607][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:34.608][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:03:34.609][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=193176".
biodb.DEBUG[2025-08-30 16:03:34.611][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-08-30 16:03:34.612][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-08-30 16:03:34.614][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=193176".
biodb.TRACE[2025-08-30 16:03:34.952][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=193176).
biodb.DEBUG[2025-08-30 16:03:35.307][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-08-30 16:03:35.310][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/343c078fd7b00f04bd71e6f2aebb6ed3.content"
biodb.TRACE[2025-08-30 16:03:35.316][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/343c078fd7b00f04bd71e6f2aebb6ed3.request"
biodb.TRACE[2025-08-30 16:03:35.320][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/193176.xml"
biodb.DEBUG[2025-08-30 16:03:35.323][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-08-30 16:03:35.325][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-30 16:03:35.327][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-30 16:03:35.330][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:35.331][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:35.333][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:35.341][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:35.342][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:35.344][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:35.346][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:35.349][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:35.351][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:35.353][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:35.354][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:35.356][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:35.358][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:35.359][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:35.361][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:35.362][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:03:35.364][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:03:35.365][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:35.366][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:35.368][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:03:35.369][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:03:35.370][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:35.371][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:35.373][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:03:35.374][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:03:35.375][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:35.376][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:35.378][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:03:35.379][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:03:35.380][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:35.381][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:35.382][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:03:35.383][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:03:35.384][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:35.385][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:35.386][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:03:35.388][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:03:35.388][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:35.389][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:35.390][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:03:35.391][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:03:35.392][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:35.393][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:35.394][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:03:35.395][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:03:35.396][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:35.397][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:35.398][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:03:35.399][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:03:35.400][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:35.401][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:35.402][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:03:35.403][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:35.404][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:35.405][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:35.406][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:03:35.407][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:35.408][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:35.409][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:35.410][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:35.411][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:35.412][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:35.413][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:35.414][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:35.415][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:35.416][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:35.417][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:35.418][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:03:35.419][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:03:35.420][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:35.421][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:35.422][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:03:35.423][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:03:35.424][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:35.425][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:35.426][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:03:35.427][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:03:35.428][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:35.429][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:35.430][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:03:35.431][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:03:35.432][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:35.433][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:35.434][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:03:35.435][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:03:35.436][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:35.437][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:35.438][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:03:35.439][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:03:35.440][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:35.441][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:35.442][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:35.443][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:35.444][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:35.445][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:35.445][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:35.446][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:35.447][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:35.448][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:35.449][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:35.450][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:35.451][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:35.452][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:35.453][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:35.454][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:35.455][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:35.456][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:35.457][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:35.458][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:35.459][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:35.460][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:35.461][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:35.462][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:35.462][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:35.463][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:35.464][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:35.465][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:35.466][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:35.467][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:35.468][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:35.469][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:35.470][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:35.471][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:35.472][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:35.473][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:35.474][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:35.475][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:35.476][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:35.486][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:35.487][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:35.488][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:35.489][self$createEntryFromContent] Accession numbers: 193176.
biodb.TRACE[2025-08-30 16:03:35.490][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:35.491][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:35.492][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:35.493][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:35.494][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:35.495][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:35.496][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:35.496][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:35.497][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:35.498][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:35.499][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:35.500][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:35.501][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:35.502][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:35.503][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:35.507][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:35.508][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:35.509][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:35.509][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:03:35.511][private$loadEntries] Creating entries from ids [1]: "196395".
biodb.DEBUG[2025-08-30 16:03:35.511][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-08-30 16:03:35.513][cch$loadFileContent] Trying to load 1 files from cache: [1]: "196395".
biodb.TRACE[2025-08-30 16:03:35.514][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-08-30 16:03:35.515][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-08-30 16:03:35.516][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-30 16:03:35.517][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-08-30 16:03:35.518][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-08-30 16:03:35.519][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-08-30 16:03:35.521][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:35.522][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:35.523][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:35.527][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:35.528][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:35.529][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:35.530][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:03:35.531][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=196395".
biodb.DEBUG[2025-08-30 16:03:35.533][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-08-30 16:03:35.534][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-08-30 16:03:35.535][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=196395".
biodb.TRACE[2025-08-30 16:03:35.877][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=196395).
biodb.DEBUG[2025-08-30 16:03:36.230][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-08-30 16:03:36.235][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/73421bc681b7c5ac1a6297ef414ac513.content"
biodb.TRACE[2025-08-30 16:03:36.243][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/73421bc681b7c5ac1a6297ef414ac513.request"
biodb.TRACE[2025-08-30 16:03:36.249][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/196395.xml"
biodb.DEBUG[2025-08-30 16:03:36.252][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-08-30 16:03:36.255][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-30 16:03:36.257][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-30 16:03:36.261][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:36.263][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:36.266][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:36.275][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:36.277][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:36.279][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:36.280][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:36.284][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:36.286][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:36.287][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:36.289][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:36.291][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:36.293][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:36.294][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:36.295][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:36.297][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:03:36.298][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:03:36.300][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:36.301][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:36.303][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:03:36.304][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:03:36.305][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:36.306][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:36.308][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:03:36.309][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:03:36.310][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:36.311][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:36.313][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:03:36.314][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:03:36.315][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:36.316][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:36.317][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:03:36.318][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:03:36.319][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:36.320][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:36.321][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:03:36.323][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:03:36.323][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:36.324][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:36.325][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:03:36.326][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:03:36.327][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:36.328][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:36.329][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:03:36.331][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:03:36.332][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:36.333][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:36.334][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:03:36.335][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:03:36.336][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:36.336][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:36.338][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:03:36.339][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:36.340][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:36.340][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:36.342][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:03:36.343][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:36.344][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:36.345][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:36.346][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:36.347][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:36.348][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:36.349][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:36.350][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:36.351][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:36.352][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:36.353][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:36.354][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:03:36.355][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:03:36.356][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:36.357][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:36.358][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:03:36.359][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:03:36.360][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:36.361][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:36.362][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:03:36.363][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:03:36.364][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:36.365][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:36.366][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:03:36.367][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:03:36.368][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:36.369][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:36.370][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:03:36.371][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:03:36.372][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:36.373][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:36.374][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:03:36.375][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:03:36.376][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:36.377][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:36.378][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:36.379][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:36.380][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:36.381][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:36.382][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:36.383][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:36.384][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:36.385][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:36.386][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:36.387][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:36.388][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:36.389][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:36.390][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:36.391][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:36.392][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:36.393][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:36.394][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:36.395][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:36.396][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:36.397][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:36.398][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:36.399][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:36.400][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:36.400][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:36.401][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:36.403][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:36.404][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:36.405][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:36.406][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:36.407][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:36.408][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:36.409][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:36.409][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:36.410][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:36.411][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:36.412][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:36.413][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:36.414][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:36.415][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:36.416][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:36.417][self$createEntryFromContent] Accession numbers: 196395.
biodb.TRACE[2025-08-30 16:03:36.418][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:36.419][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:36.420][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:36.421][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:36.422][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:36.423][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:36.424][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:36.425][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:36.426][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:36.427][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:36.428][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:36.429][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:36.430][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:36.431][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:36.432][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:36.436][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:36.437][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:36.438][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:36.439][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:36.440][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:36.441][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:36.442][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:36.442][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:36.443][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:36.445][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:36.446][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:36.447][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:36.448][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:36.449][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:36.450][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:36.450][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:36.452][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-08-30 16:03:36.453][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:36.454][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:36.455][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:36.459][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:36.460][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:36.461][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:36.462][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:36.463][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:36.464][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:36.465][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:36.466][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:36.467][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:36.468][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:36.468][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:36.469][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:36.470][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:36.471][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:03:36.472][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:03:36.473][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:03:36.474][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:36.475][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:36.476][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:36.477][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:36.478][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:36.479][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:36.480][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:36.481][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:36.482][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:36.483][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:36.484][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:36.485][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:36.486][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:36.487][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:36.488][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:36.489][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-30 16:03:36.490][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:36.491][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:36.492][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:36.493][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:36.493][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:36.494][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:36.495][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:36.496][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:36.497][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:36.498][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:36.499][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:36.500][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:36.501][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [7799].
biodb.DEBUG[2025-08-30 16:03:36.502][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:36.503][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:36.504][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:36.508][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:36.509][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:36.510][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:36.511][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:36.512][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:36.513][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:36.514][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:36.515][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:36.516][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:36.517][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:36.518][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:36.519][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:36.520][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:36.521][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:03:36.522][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:03:36.523][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:03:36.524][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:36.524][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:36.525][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:36.526][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:36.527][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:36.528][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:36.529][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:36.530][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:36.531][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:36.532][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:36.533][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:36.534][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:36.535][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:36.536][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:36.537][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:36.538][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-30 16:03:36.539][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:36.549][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:36.550][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:36.551][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:36.552][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:36.553][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:36.554][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:36.555][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:36.556][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:36.557][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:36.558][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:36.559][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:36.560][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [71954].
biodb.DEBUG[2025-08-30 16:03:36.561][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:36.562][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:36.563][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:36.567][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:36.568][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:36.568][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:36.569][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:36.570][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:36.571][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:36.572][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:36.573][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:36.574][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:36.575][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:36.576][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:36.577][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:36.578][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:36.579][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:03:36.580][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:03:36.581][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:03:36.582][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:36.583][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:36.584][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:36.584][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:36.585][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:36.586][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:36.587][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:36.588][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:36.589][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:36.590][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:36.591][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:36.592][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:36.593][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:36.594][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:36.595][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:36.596][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-30 16:03:36.597][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:36.598][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:36.599][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:36.600][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:36.601][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:36.602][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:36.603][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:36.603][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:36.604][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:36.605][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:36.607][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:36.607][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:36.609][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [197612].
biodb.DEBUG[2025-08-30 16:03:36.610][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-08-30 16:03:36.610][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2025-08-30 16:03:36.627][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:36.628][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:36.629][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:36.633][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:36.634][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:36.635][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:36.636][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:03:36.638][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.5*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-08-30 16:03:36.641][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-08-30 16:03:36.642][cch$loadFileContent] Trying to load 1 files from cache: [1]: "ebf8c17fa19fb0caf99d83ca8441a2ac".
biodb.TRACE[2025-08-30 16:03:36.643][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-08-30 16:03:36.645][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/ebf8c17fa19fb0caf99d83ca8441a2ac.content".
biodb.DEBUG[2025-08-30 16:03:36.650][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:36.650][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:36.651][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:36.655][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:36.656][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:36.657][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:36.658][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:36.659][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:36.660][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:36.661][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:36.662][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:36.663][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:36.664][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:36.665][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:36.666][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:36.667][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:36.668][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:36.669][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:36.670][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:36.671][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:36.671][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:36.672][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:36.676][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:36.677][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:36.678][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:36.679][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:36.680][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:36.681][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:36.682][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:36.683][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:36.684][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:36.685][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:36.686][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:36.687][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:36.688][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:36.689][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:36.690][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:36.690][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:36.691][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:36.693][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:36.693][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:36.697][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:36.698][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:36.699][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:36.700][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:36.701][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:36.702][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:36.703][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:36.704][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:36.705][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:36.706][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:36.707][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:36.708][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:36.709][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:36.710][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:36.711][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:36.712][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:36.713][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:36.713][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:36.714][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:36.718][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:36.719][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:36.720][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:36.721][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:36.722][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:36.723][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:36.724][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:36.725][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:36.726][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:36.727][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:36.728][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:36.729][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:36.730][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:36.731][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:36.732][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:36.732][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:36.734][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-08-30 16:03:36.735][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:36.736][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:36.737][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:36.741][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:36.742][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:36.742][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:36.743][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:36.744][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:36.745][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:36.746][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:36.747][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:36.748][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:36.750][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:36.750][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:36.751][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:36.752][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:36.753][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:03:36.754][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:03:36.755][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:03:36.756][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:36.757][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:36.758][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:36.759][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:36.760][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:36.761][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:36.762][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:36.763][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:36.763][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:36.765][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:36.765][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:36.766][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:36.767][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:36.768][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:36.769][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:36.770][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-30 16:03:36.771][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:36.772][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:36.773][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:36.774][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:36.775][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:36.776][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:36.777][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:36.778][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:36.779][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:36.780][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:36.781][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:36.782][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:36.783][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [3014].
biodb.DEBUG[2025-08-30 16:03:36.784][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:36.785][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:36.786][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:36.789][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:36.790][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:36.791][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:36.792][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:36.793][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:36.794][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:36.795][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:36.796][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:36.797][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:36.798][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:36.799][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:36.800][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:36.801][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:36.802][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:03:36.803][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:03:36.804][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:03:36.805][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:36.806][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:36.807][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:36.808][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:36.809][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:36.810][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:36.811][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:36.812][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:36.812][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:36.813][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:36.814][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:36.815][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:36.816][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:36.817][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:36.818][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:36.819][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-30 16:03:36.820][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:36.821][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:36.822][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:36.823][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:36.824][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:36.825][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:36.826][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:36.827][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:36.828][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:36.829][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:36.830][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:36.831][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:36.832][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [8021].
biodb.DEBUG[2025-08-30 16:03:36.833][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:36.834][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:36.835][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:36.839][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:36.840][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:36.840][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:36.841][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:36.842][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:36.843][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:36.844][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:36.845][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:36.846][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:36.847][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:36.848][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:36.849][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:36.850][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:36.851][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:03:36.852][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:03:36.853][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:03:36.854][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:36.855][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:36.856][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:36.857][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:36.858][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:36.859][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:36.860][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:36.861][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:36.862][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:36.862][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:36.863][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:36.870][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:36.871][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:36.872][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:36.873][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:36.874][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-30 16:03:36.875][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:36.876][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:36.877][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:36.878][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:36.879][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:36.880][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:36.881][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:36.882][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:36.883][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:36.884][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:36.885][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:36.886][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:36.887][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [30382].
biodb.DEBUG[2025-08-30 16:03:36.888][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-08-30 16:03:36.889][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2025-08-30 16:03:36.891][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:36.892][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:36.893][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:36.897][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:36.898][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:36.898][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:36.899][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:03:36.902][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=480.4*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-08-30 16:03:36.904][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-08-30 16:03:36.906][cch$loadFileContent] Trying to load 1 files from cache: [1]: "152225e020c3e5947a0f5a90f021cee7".
biodb.TRACE[2025-08-30 16:03:36.907][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-08-30 16:03:36.908][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/152225e020c3e5947a0f5a90f021cee7.content".
biodb.DEBUG[2025-08-30 16:03:36.912][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:36.912][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:36.913][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:36.917][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:36.918][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:36.919][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:36.920][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:36.921][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:36.922][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:36.923][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:36.924][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:36.925][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:36.926][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:36.927][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:36.928][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:36.929][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:36.930][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:36.930][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:36.931][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:36.932][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:36.933][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:36.934][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:36.938][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:36.939][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:36.940][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:36.941][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:36.942][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:36.943][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:36.944][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:36.945][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:36.946][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:36.947][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:36.947][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:36.948][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:36.949][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:36.950][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:36.951][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:36.953][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:36.954][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:36.954][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:36.955][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:36.959][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:36.960][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:36.961][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:36.962][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:36.963][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:36.964][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:36.965][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:36.966][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:36.967][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:36.968][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:36.969][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:36.970][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:36.971][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:36.972][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:36.973][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:36.974][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:36.975][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:36.975][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:36.976][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:36.980][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:36.981][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:36.982][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:36.983][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:36.984][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:36.985][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:36.986][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:36.987][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:36.988][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:36.989][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:36.990][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:36.991][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:36.992][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:36.993][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:36.994][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:36.995][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:36.996][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:36.997][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:36.998][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:37.001][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:37.002][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:37.003][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:37.004][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:37.005][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:37.006][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:37.007][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:37.008][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:37.009][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:37.010][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:37.011][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:37.012][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:37.013][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:37.014][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:37.015][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:37.016][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:37.017][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:37.018][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:37.019][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:37.023][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:37.024][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:37.025][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:37.025][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:37.026][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:37.027][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:37.028][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:37.029][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:37.030][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:37.031][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:37.032][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:37.033][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:37.034][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:37.035][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:37.036][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:37.037][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:37.038][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:37.039][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:37.040][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:37.044][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:37.045][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:37.045][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:37.046][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:37.047][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:37.048][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:37.049][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:37.050][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:37.052][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:37.053][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:37.054][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:37.054][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:37.055][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:37.056][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:37.057][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:37.058][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:37.059][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-08-30 16:03:37.061][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:37.062][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:37.062][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:37.067][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:37.068][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:37.068][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:37.069][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:37.070][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:37.071][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:37.072][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:37.073][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:37.074][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:37.075][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:37.076][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:37.077][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:37.078][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:37.079][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:03:37.080][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:03:37.081][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:03:37.082][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:37.083][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:37.084][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:37.085][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:37.086][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:37.087][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:37.088][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:37.089][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:37.089][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:37.090][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:37.091][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:37.092][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:37.093][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:37.094][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:37.095][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:37.096][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-30 16:03:37.097][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:37.098][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:37.099][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:37.100][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:37.101][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:37.102][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:37.103][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:37.104][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:37.105][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:37.106][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:37.107][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:37.108][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:37.109][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [65530].
biodb.DEBUG[2025-08-30 16:03:37.110][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:37.111][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:37.112][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:37.116][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:37.117][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:37.118][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:37.119][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:37.120][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:37.121][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:37.122][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:37.123][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:37.124][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:37.125][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:37.126][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:37.127][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:37.128][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:37.129][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:03:37.129][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:03:37.130][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:03:37.131][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:37.132][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:37.133][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:37.134][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:37.135][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:37.136][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:37.137][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:37.138][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:37.139][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:37.140][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:37.141][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:37.142][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:37.143][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:37.144][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:37.145][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:37.146][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-30 16:03:37.147][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:37.148][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:37.149][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:37.150][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:37.151][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:37.152][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:37.153][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:37.154][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:37.155][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:37.156][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:37.157][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:37.158][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:37.159][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [90204].
biodb.DEBUG[2025-08-30 16:03:37.160][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:37.161][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:37.162][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:37.166][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:37.167][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:37.168][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:37.168][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:37.170][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:37.171][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:37.171][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:37.172][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:37.173][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:37.174][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:37.175][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:37.176][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:37.177][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:37.178][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:03:37.179][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:03:37.180][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:03:37.181][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:37.182][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:37.183][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:37.184][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:37.185][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:37.186][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:37.187][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:37.188][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:37.189][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:37.195][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:37.196][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:37.197][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:37.198][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:37.199][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:37.200][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:37.201][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-30 16:03:37.202][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:37.203][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:37.204][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:37.205][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:37.206][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:37.207][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:37.208][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:37.209][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:37.210][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:37.211][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:37.212][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:37.213][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:37.214][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [132793].
biodb.DEBUG[2025-08-30 16:03:37.215][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-08-30 16:03:37.216][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2025-08-30 16:03:37.218][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:37.219][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:37.220][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:37.224][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:37.225][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:37.226][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:37.226][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:03:37.229][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.1*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-08-30 16:03:37.232][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-08-30 16:03:37.233][cch$loadFileContent] Trying to load 1 files from cache: [1]: "9686ce9c957a368dd8f5b4cc9c5b15b3".
biodb.TRACE[2025-08-30 16:03:37.234][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-08-30 16:03:37.235][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/9686ce9c957a368dd8f5b4cc9c5b15b3.content".
biodb.DEBUG[2025-08-30 16:03:37.238][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:37.239][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:37.239][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:37.243][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:37.244][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:37.245][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:37.246][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:37.247][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:37.248][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:37.249][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:37.250][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:37.251][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:37.252][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:37.253][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:37.254][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:37.255][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:37.256][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:37.257][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:37.258][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:37.259][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:37.259][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:37.260][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:37.264][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:37.265][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:37.266][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:37.267][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:37.268][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:37.269][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:37.270][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:37.271][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:37.272][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:37.273][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:37.274][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:37.275][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:37.276][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:37.277][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:37.278][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:37.279][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:37.281][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.2*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-08-30 16:03:37.283][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-08-30 16:03:37.285][cch$loadFileContent] Trying to load 1 files from cache: [1]: "5d833e77a1be58060d0c3916a1e1b293".
biodb.TRACE[2025-08-30 16:03:37.286][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-08-30 16:03:37.287][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/5d833e77a1be58060d0c3916a1e1b293.content".
biodb.DEBUG[2025-08-30 16:03:37.289][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:37.290][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:37.291][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:37.295][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:37.296][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:37.297][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:37.298][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:37.299][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:37.300][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:37.301][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:37.302][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:37.303][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:37.304][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:37.305][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:37.306][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:37.307][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:37.308][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:37.309][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:37.310][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:37.311][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:37.312][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:37.313][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:37.316][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:37.317][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:37.318][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:37.319][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:37.320][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:37.322][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:37.323][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:37.324][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:37.324][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:37.325][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:37.326][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:37.327][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:37.328][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:37.329][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:37.330][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:37.331][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:37.332][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:37.333][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:37.334][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:37.338][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:37.339][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:37.340][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:37.341][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:37.342][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:37.343][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:37.344][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:37.345][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:37.346][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:37.347][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:37.348][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:37.349][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:37.350][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:37.351][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:37.352][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:37.353][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:37.354][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-08-30 16:03:37.355][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:37.356][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:37.357][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:37.361][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:37.362][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:37.363][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:37.363][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:37.365][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:37.366][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:37.367][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:37.368][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:37.369][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:37.370][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:37.371][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:37.371][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:37.372][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:37.373][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:03:37.374][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:03:37.375][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:03:37.376][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:37.377][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:37.378][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:37.379][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:37.380][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:37.381][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:37.382][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:37.383][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:37.384][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:37.385][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:37.386][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:37.386][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:37.387][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:37.388][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:37.389][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:37.390][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-30 16:03:37.391][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:37.392][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:37.393][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:37.394][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:37.395][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:37.396][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:37.397][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:37.398][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:37.399][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:37.400][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:37.401][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:37.402][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:37.403][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [51836].
biodb.DEBUG[2025-08-30 16:03:37.404][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:37.405][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:37.405][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:37.409][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:37.410][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:37.411][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:37.412][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:37.413][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:37.414][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:37.415][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:37.416][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:37.417][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:37.418][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:37.419][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:37.419][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:37.420][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:37.421][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:03:37.422][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:03:37.423][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:03:37.424][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:37.425][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:37.426][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:37.427][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:37.428][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:37.429][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:37.430][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:37.431][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:37.432][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:37.432][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:37.433][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:37.434][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:37.435][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:37.436][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:37.437][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:37.438][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-30 16:03:37.439][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:37.440][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:37.441][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:37.442][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:37.443][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:37.444][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:37.445][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:37.446][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:37.447][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:37.448][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:37.448][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:37.449][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:37.451][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [51837].
biodb.DEBUG[2025-08-30 16:03:37.452][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:37.452][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:37.453][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:37.457][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:37.458][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:37.459][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:37.460][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:37.461][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:37.462][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:37.463][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:37.464][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:37.465][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:37.466][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:37.467][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:37.468][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:37.469][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:37.469][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:03:37.470][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:03:37.471][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:03:37.472][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:37.473][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:37.474][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:37.475][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:37.476][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:37.477][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:37.478][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:37.479][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:37.480][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:37.481][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:37.482][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:37.483][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:37.484][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:37.485][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:37.486][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:37.487][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-30 16:03:37.488][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:37.489][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:37.490][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:37.491][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:37.492][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:37.493][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:37.493][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:37.494][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:37.495][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:37.496][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:37.497][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:37.498][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:37.499][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [132205].
biodb.DEBUG[2025-08-30 16:03:37.500][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-08-30 16:03:37.501][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2025-08-30 16:03:37.523][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:37.524][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:37.525][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:37.529][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:37.530][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:37.531][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:37.531][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:03:37.534][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.72*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-08-30 16:03:37.537][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-08-30 16:03:37.538][cch$loadFileContent] Trying to load 1 files from cache: [1]: "dabc9e8530050c4ceebbaec76743bcf1".
biodb.TRACE[2025-08-30 16:03:37.539][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-08-30 16:03:37.540][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/dabc9e8530050c4ceebbaec76743bcf1.content".
biodb.DEBUG[2025-08-30 16:03:37.542][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:37.543][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:37.544][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:37.548][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:37.549][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:37.550][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:37.551][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:37.552][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:37.553][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:37.553][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:37.554][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:37.555][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:37.556][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:37.557][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:37.558][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:37.559][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:37.560][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:37.561][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:37.562][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:37.564][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.73*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-08-30 16:03:37.566][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-08-30 16:03:37.568][cch$loadFileContent] Trying to load 1 files from cache: [1]: "41b7f9723242a79cfe14bebd91dbb5b6".
biodb.TRACE[2025-08-30 16:03:37.569][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-08-30 16:03:37.570][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/41b7f9723242a79cfe14bebd91dbb5b6.content".
biodb.DEBUG[2025-08-30 16:03:37.572][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:37.573][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:37.574][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:37.578][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:37.579][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:37.579][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:37.580][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:37.581][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:37.582][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:37.583][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:37.584][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:37.585][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:37.586][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:37.587][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:37.588][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:37.589][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:37.590][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:37.591][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:37.592][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:37.593][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:37.594][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:37.595][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:37.598][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:37.599][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:37.600][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:37.601][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:37.602][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:37.603][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:37.604][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:37.605][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:37.606][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:37.607][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:37.608][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:37.609][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:37.610][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:37.611][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:37.612][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:37.613][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:37.614][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-08-30 16:03:37.615][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:37.617][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:37.617][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:37.621][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:37.622][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:37.623][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:37.624][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:37.625][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:37.626][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:37.627][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:37.628][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:37.629][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:37.630][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:37.631][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:37.632][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:37.633][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:37.634][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:03:37.635][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:03:37.636][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:03:37.636][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:37.637][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:37.638][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:37.639][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:37.640][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:37.641][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:37.642][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:37.643][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:37.644][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:37.645][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:37.646][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:37.647][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:37.648][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:37.649][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:37.650][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:37.651][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-30 16:03:37.652][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:37.653][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:37.654][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:37.655][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:37.656][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:37.657][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:37.658][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:37.659][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:37.660][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:37.661][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:37.662][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:37.663][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:37.664][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [192288].
biodb.DEBUG[2025-08-30 16:03:37.665][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:37.666][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:37.667][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:37.670][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:37.671][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:37.672][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:37.673][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:37.674][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:37.675][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:37.676][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:37.677][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:37.678][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:37.679][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:37.680][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:37.681][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:37.682][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:37.683][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:03:37.684][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:03:37.685][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:03:37.686][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:37.687][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:37.688][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:37.689][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:37.690][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:37.691][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:37.692][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:37.693][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:37.694][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:37.694][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:37.695][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:37.696][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:37.697][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:37.698][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:37.699][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:37.700][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-30 16:03:37.701][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:37.702][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:37.703][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:37.704][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:37.705][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:37.706][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:37.707][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:37.708][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:37.709][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:37.710][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:37.711][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:37.712][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:37.713][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-08-30 16:03:37.714][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:37.715][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:37.716][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:37.720][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:37.721][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:37.722][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:37.722][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:37.724][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:37.725][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:37.725][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:37.726][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:37.727][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:37.728][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:37.729][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:37.730][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:37.731][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:37.732][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:03:37.733][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:03:37.734][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:03:37.735][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:37.736][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:37.737][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:37.738][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:37.739][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:37.740][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:37.741][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:37.742][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:37.743][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:37.744][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:37.745][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:37.746][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:37.747][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:37.748][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:37.749][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:37.749][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-30 16:03:37.750][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:37.751][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:37.752][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:37.753][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:37.754][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:37.755][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:37.756][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:37.757][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:37.758][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:37.759][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:37.760][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:37.761][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:37.762][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [209892].
biodb.DEBUG[2025-08-30 16:03:37.763][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-08-30 16:03:37.764][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2025-08-30 16:03:37.766][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:37.767][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:37.768][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:37.772][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:37.773][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:37.774][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:37.775][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:03:37.777][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=480.62*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-08-30 16:03:37.780][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-08-30 16:03:37.781][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b3cd8ddf08f509014f10dc9bf7c1649d".
biodb.TRACE[2025-08-30 16:03:37.782][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-08-30 16:03:37.784][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b3cd8ddf08f509014f10dc9bf7c1649d.content".
biodb.DEBUG[2025-08-30 16:03:37.786][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:37.787][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:37.788][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:37.792][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:37.793][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:37.793][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:37.794][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:37.795][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:37.796][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:37.797][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:37.798][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:37.799][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:37.800][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:37.801][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:37.802][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:37.803][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:37.804][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:37.805][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:37.806][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:37.807][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:37.808][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:37.809][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:37.813][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:37.813][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:37.814][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:37.815][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:37.817][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:37.818][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:37.819][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:37.820][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:37.820][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:37.821][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:37.822][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:37.823][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:37.824][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:37.825][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:37.826][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:37.827][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:37.829][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=480.63*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-08-30 16:03:37.832][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-08-30 16:03:37.833][cch$loadFileContent] Trying to load 1 files from cache: [1]: "831507e33c6cf42061851262412f5feb".
biodb.TRACE[2025-08-30 16:03:37.834][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-08-30 16:03:37.836][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/831507e33c6cf42061851262412f5feb.content".
biodb.DEBUG[2025-08-30 16:03:37.843][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:37.844][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:37.845][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:37.849][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:37.850][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:37.851][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:37.852][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:37.853][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:37.854][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:37.855][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:37.856][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:37.857][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:37.858][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:37.859][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:37.860][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:37.861][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:37.862][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:37.863][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:37.864][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:37.865][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:37.865][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:37.866][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:37.870][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:37.871][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:37.872][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:37.873][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:37.874][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:37.875][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:37.876][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:37.877][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:37.878][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:37.879][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:37.879][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:37.880][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:37.881][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:37.882][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:37.883][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:37.884][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:37.885][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:37.886][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:37.887][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:37.891][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:37.892][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:37.892][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:37.893][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:37.894][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:37.895][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:37.896][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:37.897][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:37.898][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:37.899][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:37.900][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:37.901][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:37.902][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:37.903][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:37.904][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:37.905][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:37.906][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-08-30 16:03:37.908][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:37.908][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:37.909][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:37.913][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:37.914][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:37.915][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:37.916][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:37.917][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:37.918][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:37.919][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:37.920][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:37.921][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:37.922][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:37.923][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:37.924][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:37.924][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:37.925][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:03:37.926][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:03:37.927][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:03:37.928][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:37.929][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:37.930][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:37.931][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:37.932][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:37.933][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:37.934][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:37.935][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:37.936][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:37.937][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:37.938][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:37.939][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:37.940][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:37.941][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:37.942][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:37.943][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-30 16:03:37.944][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:37.945][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:37.946][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:37.947][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:37.948][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:37.949][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:37.950][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:37.951][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:37.952][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:37.953][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:37.954][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:37.955][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:37.956][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4781].
biodb.DEBUG[2025-08-30 16:03:37.957][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:37.958][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:37.959][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:37.963][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:37.964][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:37.964][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:37.965][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:37.966][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:37.967][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:37.968][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:37.969][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:37.970][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:37.971][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:37.972][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:37.973][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:37.974][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:37.975][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:03:37.976][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:03:37.977][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:03:37.978][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:37.979][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:37.980][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:37.981][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:37.982][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:37.983][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:37.984][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:37.985][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:37.985][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:37.986][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:37.987][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:37.989][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:37.990][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:37.990][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:37.991][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:37.992][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-30 16:03:37.993][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:37.994][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:37.995][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:37.996][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:37.997][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:37.998][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:37.999][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:38.000][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:38.001][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:38.002][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:38.003][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:38.004][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:38.005][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [16587].
biodb.DEBUG[2025-08-30 16:03:38.006][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:38.007][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:38.008][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:38.012][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:38.013][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:38.013][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:38.014][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:38.015][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:38.016][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:38.017][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:38.018][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:38.019][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:38.020][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:38.021][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:38.022][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:38.023][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:38.024][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:03:38.025][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:03:38.026][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:03:38.027][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:38.028][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:38.029][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:38.030][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:38.031][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:38.032][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:38.033][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:38.034][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:38.035][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:38.036][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:38.037][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:38.037][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:38.038][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:38.039][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:38.040][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:38.041][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-30 16:03:38.042][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:38.043][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:38.044][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:38.045][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:38.046][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:38.047][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:38.048][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:38.049][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:38.050][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:38.051][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:38.052][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:38.053][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:38.054][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [19804].
biodb.DEBUG[2025-08-30 16:03:38.055][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-08-30 16:03:38.056][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2025-08-30 16:03:38.058][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:38.059][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:38.060][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:38.064][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:38.065][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:38.065][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:38.066][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:03:38.069][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.38*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-08-30 16:03:38.072][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-08-30 16:03:38.073][cch$loadFileContent] Trying to load 1 files from cache: [1]: "26d0872875c47c33e8205aa7124e0486".
biodb.TRACE[2025-08-30 16:03:38.074][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-08-30 16:03:38.075][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/26d0872875c47c33e8205aa7124e0486.content".
biodb.DEBUG[2025-08-30 16:03:38.078][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:38.078][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:38.079][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:38.083][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:38.084][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:38.085][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:38.086][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:38.087][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:38.088][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:38.089][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:38.090][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:38.091][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:38.092][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:38.093][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:38.094][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:38.095][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:38.096][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:38.097][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:38.098][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:38.099][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:38.099][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:38.100][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:38.104][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:38.105][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:38.106][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:38.107][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:38.108][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:38.109][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:38.110][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:38.111][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:38.112][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:38.113][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:38.114][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:38.115][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:38.116][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:38.117][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:38.118][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:38.119][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:38.120][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:38.121][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:38.121][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:38.125][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:38.126][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:38.127][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:38.128][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:38.129][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:38.130][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:38.131][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:38.132][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:38.133][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:38.134][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:38.135][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:38.136][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:38.137][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:38.138][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:38.139][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:38.140][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:38.141][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:38.141][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:38.142][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:38.146][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:38.147][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:38.148][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:38.149][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:38.150][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:38.151][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:38.152][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:38.153][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:38.154][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:38.155][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:38.156][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:38.157][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:38.158][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:38.164][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:38.165][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:38.166][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:38.167][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:38.168][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:38.169][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:38.173][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:38.174][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:38.175][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:38.176][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:38.177][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:38.178][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:38.179][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:38.179][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:38.180][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:38.181][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:38.182][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:38.183][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:38.184][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:38.185][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:38.186][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:38.187][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:38.188][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:38.189][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:38.190][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:38.194][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:38.194][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:38.195][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:38.196][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:38.197][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:38.198][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:38.199][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:38.200][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:38.201][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:38.202][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:38.203][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:38.204][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:38.205][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:38.206][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:38.207][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:38.208][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:38.209][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:38.210][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:38.210][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:38.214][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:38.215][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:38.216][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:38.217][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:38.218][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:38.219][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:38.220][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:38.221][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:38.222][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:38.223][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:38.224][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:38.225][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:38.226][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:38.227][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:38.227][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:38.228][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:38.229][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:38.230][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:38.231][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:38.235][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:38.236][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:38.237][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:38.238][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:38.239][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:38.240][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:38.241][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:38.241][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:38.242][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:38.243][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:38.244][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:38.245][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:38.247][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:38.248][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:38.249][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:38.249][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:38.251][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-08-30 16:03:38.254][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-08-30 16:03:38.255][cch$loadFileContent] Trying to load 1 files from cache: [1]: "357534c211a0779cb44e196fcebae6c0".
biodb.TRACE[2025-08-30 16:03:38.256][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-08-30 16:03:38.258][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/357534c211a0779cb44e196fcebae6c0.content".
biodb.DEBUG[2025-08-30 16:03:38.260][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:38.261][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:38.262][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:38.265][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:38.266][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:38.267][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:38.268][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:38.269][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:38.270][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:38.271][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:38.272][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:38.273][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:38.274][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:38.275][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:38.276][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:38.277][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:38.278][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:38.279][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:38.280][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:38.281][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:38.282][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:38.283][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:38.286][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:38.287][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:38.288][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:38.289][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:38.290][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:38.291][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:38.292][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:38.293][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:38.294][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:38.295][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:38.296][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:38.297][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:38.298][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:38.299][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:38.300][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:38.301][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:38.302][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:38.303][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:38.304][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:38.308][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:38.309][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:38.310][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:38.310][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:38.311][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:38.312][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:38.313][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:38.314][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:38.315][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:38.316][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:38.317][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:38.318][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:38.319][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:38.320][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:38.321][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:38.322][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:38.323][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-08-30 16:03:38.325][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:38.326][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:38.327][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:38.330][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:38.331][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:38.332][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:38.333][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:38.334][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:38.335][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:38.336][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:38.337][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:38.338][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:38.339][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:38.340][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:38.341][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:38.342][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:38.343][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:03:38.344][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:03:38.345][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:03:38.346][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:38.347][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:38.348][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:38.349][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:38.350][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:38.351][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:38.352][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:38.353][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:38.353][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:38.354][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:38.355][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:38.356][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:38.357][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:38.358][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:38.359][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:38.360][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-30 16:03:38.361][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:38.362][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:38.363][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:38.364][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:38.365][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:38.366][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:38.367][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:38.368][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:38.369][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:38.370][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:38.371][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:38.372][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:38.373][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [7799].
biodb.DEBUG[2025-08-30 16:03:38.374][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:38.375][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:38.376][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:38.380][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:38.381][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:38.382][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:38.382][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:38.384][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:38.385][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:38.385][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:38.386][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:38.387][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:38.388][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:38.389][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:38.390][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:38.391][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:38.392][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:03:38.393][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:03:38.394][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:03:38.395][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:38.396][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:38.397][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:38.398][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:38.399][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:38.400][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:38.401][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:38.402][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:38.403][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:38.404][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:38.405][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:38.406][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:38.407][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:38.408][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:38.409][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:38.410][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-30 16:03:38.411][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:38.412][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:38.412][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:38.413][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:38.414][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:38.415][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:38.416][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:38.417][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:38.418][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:38.419][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:38.420][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:38.421][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:38.423][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [71954].
biodb.DEBUG[2025-08-30 16:03:38.424][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:38.424][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:38.425][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:38.429][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:38.430][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:38.431][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:38.432][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:38.433][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:38.434][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:38.435][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:38.436][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:38.437][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:38.438][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:38.439][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:38.440][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:38.441][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:38.442][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:03:38.442][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:03:38.443][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:03:38.444][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:38.445][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:38.446][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:38.447][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:38.448][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:38.449][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:38.450][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:38.451][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:38.452][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:38.453][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:38.454][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:38.455][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:38.456][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:38.457][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:38.458][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:38.459][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-30 16:03:38.460][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:38.461][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:38.462][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:38.463][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:38.464][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:38.465][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:38.466][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:38.467][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:38.468][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:38.469][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:38.470][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:38.470][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:38.472][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [197612].
biodb.DEBUG[2025-08-30 16:03:38.473][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-08-30 16:03:38.474][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2025-08-30 16:03:38.496][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:38.497][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:38.498][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:38.501][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:38.502][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:38.503][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:38.504][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:03:38.507][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.7*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-08-30 16:03:38.510][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-08-30 16:03:38.511][cch$loadFileContent] Trying to load 1 files from cache: [1]: "2b6f29bb7a7663ff23fb5e7dcae5c27f".
biodb.TRACE[2025-08-30 16:03:38.512][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-08-30 16:03:38.513][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/2b6f29bb7a7663ff23fb5e7dcae5c27f.content".
biodb.DEBUG[2025-08-30 16:03:38.516][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:38.516][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:38.517][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:38.521][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:38.522][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:38.523][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:38.524][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:38.525][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:38.526][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:38.527][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:38.528][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:38.529][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:38.530][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:38.531][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:38.532][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:38.533][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:38.534][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:38.535][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:38.536][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:38.537][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:38.537][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:38.538][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:38.542][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:38.543][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:38.544][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:38.545][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:38.546][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:38.547][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:38.548][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:38.549][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:38.550][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:38.551][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:38.552][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:38.553][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:38.554][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:38.555][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:38.555][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:38.556][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:38.557][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:38.558][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:38.559][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:38.563][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:38.564][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:38.565][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:38.566][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:38.567][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:38.568][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:38.569][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:38.570][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:38.571][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:38.572][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:38.573][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:38.574][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:38.575][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:38.576][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:38.577][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:38.578][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:38.579][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:38.580][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:38.581][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:38.584][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:38.585][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:38.586][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:38.587][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:38.588][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:38.589][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:38.590][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:38.591][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:38.592][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:38.593][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:38.594][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:38.595][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:38.596][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:38.597][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:38.598][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:38.599][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:38.600][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:38.601][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:38.602][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:38.606][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:38.607][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:38.608][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:38.609][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:38.610][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:38.611][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:38.612][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:38.613][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:38.613][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:38.614][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:38.615][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:38.616][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:38.617][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:38.618][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:38.619][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:38.621][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:38.622][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:38.622][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:38.623][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:38.627][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:38.628][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:38.629][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:38.630][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:38.631][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:38.632][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:38.633][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:38.634][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:38.635][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:38.636][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:38.637][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:38.638][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:38.639][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:38.640][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:38.641][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:38.641][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:38.643][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-08-30 16:03:38.644][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:38.645][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:38.646][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:38.650][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:38.651][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:38.652][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:38.652][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:38.654][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:38.655][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:38.656][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:38.656][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:38.657][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:38.658][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:38.659][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:38.660][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:38.661][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:38.662][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:03:38.663][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:03:38.664][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:03:38.665][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:38.666][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:38.667][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:38.668][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:38.669][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:38.670][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:38.671][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:38.672][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:38.673][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:38.674][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:38.675][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:38.676][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:38.677][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:38.678][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:38.679][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:38.680][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-30 16:03:38.681][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:38.682][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:38.683][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:38.684][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:38.685][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:38.686][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:38.686][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:38.687][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:38.688][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:38.689][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:38.690][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:38.691][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:38.693][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-08-30 16:03:38.694][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:38.695][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:38.696][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:38.699][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:38.700][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:38.701][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:38.702][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:38.703][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:38.704][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:38.705][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:38.706][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:38.707][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:38.708][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:38.709][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:38.710][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:38.711][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:38.712][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:03:38.713][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:03:38.714][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:03:38.715][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:38.716][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:38.717][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:38.717][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:38.718][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:38.719][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:38.720][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:38.722][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:38.722][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:38.723][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:38.724][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:38.725][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:38.726][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:38.727][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:38.728][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:38.729][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-30 16:03:38.730][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:38.731][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:38.732][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:38.733][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:38.734][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:38.735][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:38.736][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:38.737][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:38.738][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:38.739][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:38.740][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:38.741][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:38.742][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [28243].
biodb.DEBUG[2025-08-30 16:03:38.743][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:38.744][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:38.745][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:38.749][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:38.750][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:38.751][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:38.751][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:38.753][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:38.754][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:38.755][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:38.755][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:38.756][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:38.757][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:38.758][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:38.759][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:38.760][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:38.761][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:03:38.762][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:03:38.763][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:03:38.764][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:38.765][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:38.766][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:38.767][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:38.768][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:38.769][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:38.770][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:38.771][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:38.772][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:38.773][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:38.774][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:38.775][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:38.776][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:38.776][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:38.777][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:38.779][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-30 16:03:38.780][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:38.781][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:38.782][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:38.782][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:38.783][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:38.784][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:38.785][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:38.786][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:38.787][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:38.788][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:38.789][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:38.790][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:38.791][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [78144].
biodb.DEBUG[2025-08-30 16:03:38.792][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-08-30 16:03:38.793][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2025-08-30 16:03:38.795][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:38.796][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:38.797][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:38.801][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:38.802][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:38.803][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:38.809][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:03:38.812][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=480.6*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-08-30 16:03:38.815][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-08-30 16:03:38.816][cch$loadFileContent] Trying to load 1 files from cache: [1]: "9a13652ab89a613a3b0e10d3b6cb10a0".
biodb.TRACE[2025-08-30 16:03:38.817][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-08-30 16:03:38.818][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/9a13652ab89a613a3b0e10d3b6cb10a0.content".
biodb.DEBUG[2025-08-30 16:03:38.823][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:38.824][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:38.825][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:38.828][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:38.829][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:38.830][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:38.831][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:38.832][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:38.833][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:38.834][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:38.835][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:38.836][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:38.837][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:38.838][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:38.839][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:38.840][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:38.841][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:38.842][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:38.843][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:38.844][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:38.844][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:38.845][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:38.849][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:38.850][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:38.851][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:38.852][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:38.853][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:38.854][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:38.855][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:38.856][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:38.857][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:38.858][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:38.859][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:38.860][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:38.861][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:38.862][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:38.862][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:38.863][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:38.864][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:38.865][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:38.866][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:38.870][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:38.871][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:38.872][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:38.873][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:38.874][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:38.875][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:38.876][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:38.876][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:38.877][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:38.878][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:38.880][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:38.880][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:38.881][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:38.882][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:38.883][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:38.884][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:38.885][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-08-30 16:03:38.887][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:38.888][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:38.888][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:38.892][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:38.893][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:38.894][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:38.895][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:38.896][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:38.897][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:38.898][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:38.899][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:38.900][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:38.901][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:38.902][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:38.903][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:38.904][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:38.905][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:03:38.906][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:03:38.907][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:03:38.908][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:38.909][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:38.910][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:38.911][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:38.912][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:38.913][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:38.914][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:38.914][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:38.915][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:38.916][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:38.917][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:38.918][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:38.919][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:38.920][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:38.921][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:38.922][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-30 16:03:38.923][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:38.924][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:38.925][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:38.926][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:38.927][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:38.928][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:38.929][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:38.930][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:38.931][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:38.932][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:38.933][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:38.934][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:38.935][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4781].
biodb.DEBUG[2025-08-30 16:03:38.936][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:38.937][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:38.938][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:38.942][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:38.943][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:38.943][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:38.944][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:38.945][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:38.946][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:38.947][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:38.948][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:38.949][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:38.951][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:38.951][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:38.952][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:38.953][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:38.954][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:03:38.955][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:03:38.956][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:03:38.957][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:38.958][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:38.959][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:38.960][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:38.961][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:38.962][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:38.963][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:38.964][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:38.965][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:38.966][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:38.967][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:38.968][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:38.969][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:38.970][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:38.970][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:38.971][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-30 16:03:38.972][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:38.973][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:38.974][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:38.975][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:38.976][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:38.977][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:38.978][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:38.979][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:38.980][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:38.981][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:38.982][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:38.983][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:38.984][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [16587].
biodb.DEBUG[2025-08-30 16:03:38.985][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:38.986][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:38.987][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:38.991][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:38.992][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:38.993][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:38.994][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:38.995][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:38.996][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:38.997][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:38.998][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:38.999][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:39.000][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:39.001][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:39.002][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:39.002][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:39.003][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:03:39.004][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:03:39.005][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:03:39.006][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:39.007][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:39.008][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:39.009][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:39.010][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:39.011][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:39.012][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:39.013][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:39.014][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:39.015][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:39.016][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:39.017][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:39.018][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:39.019][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:39.020][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:39.020][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-30 16:03:39.022][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:39.023][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:39.024][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:39.025][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:39.026][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:39.027][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:39.028][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:39.028][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:39.029][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:39.030][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:39.031][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:39.032][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:39.033][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [19804].
biodb.DEBUG[2025-08-30 16:03:39.034][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-08-30 16:03:39.035][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2025-08-30 16:03:39.037][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:39.038][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:39.039][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:39.043][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:39.044][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:39.045][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:39.045][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:03:39.048][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.3*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-08-30 16:03:39.051][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-08-30 16:03:39.053][cch$loadFileContent] Trying to load 1 files from cache: [1]: "a985300ab8a01d49254fbf993ad91279".
biodb.TRACE[2025-08-30 16:03:39.054][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-08-30 16:03:39.055][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/a985300ab8a01d49254fbf993ad91279.content".
biodb.DEBUG[2025-08-30 16:03:39.058][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:39.058][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:39.059][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:39.063][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:39.064][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:39.065][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:39.066][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:39.067][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:39.068][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:39.069][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:39.070][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:39.071][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:39.072][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:39.073][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:39.074][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:39.075][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:39.076][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:39.077][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:39.077][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:39.079][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:39.080][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:39.081][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:39.084][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:39.085][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:39.086][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:39.087][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:39.088][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:39.089][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:39.090][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:39.091][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:39.092][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:39.093][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:39.094][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:39.095][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:39.096][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:39.097][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:39.098][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:39.099][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:39.100][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:39.101][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:39.101][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:39.105][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:39.106][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:39.107][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:39.108][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:39.109][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:39.110][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:39.111][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:39.112][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:39.113][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:39.114][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:39.115][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:39.116][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:39.117][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:39.118][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:39.119][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:39.120][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:39.121][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:39.122][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:39.123][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:39.132][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:39.133][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:39.134][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:39.135][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:39.136][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:39.137][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:39.138][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:39.139][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:39.140][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:39.141][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:39.142][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:39.143][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:39.144][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:39.145][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:39.146][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:39.147][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:39.148][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:39.149][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:39.150][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:39.154][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:39.154][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:39.155][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:39.156][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:39.157][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:39.158][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:39.159][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:39.160][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:39.161][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:39.162][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:39.163][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:39.164][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:39.165][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:39.166][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:39.167][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:39.168][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:39.169][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:39.170][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:39.170][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:39.174][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:39.175][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:39.176][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:39.177][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:39.178][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:39.179][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:39.180][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:39.181][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:39.182][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:39.183][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:39.184][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:39.185][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:39.186][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:39.187][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:39.188][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:39.188][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:39.189][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:39.190][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:39.191][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:39.195][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:39.196][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:39.197][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:39.198][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:39.199][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:39.200][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:39.201][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:39.202][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:39.203][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:39.204][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:39.205][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:39.205][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:39.206][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:39.208][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:39.209][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:39.210][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:39.211][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:39.211][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:39.212][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:39.216][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:39.217][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:39.218][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:39.219][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:39.220][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:39.221][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:39.222][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:39.223][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:39.224][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:39.225][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:39.226][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:39.227][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:39.228][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:39.229][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:39.230][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:39.231][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:39.232][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:39.232][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:39.233][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:39.237][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:39.238][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:39.239][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:39.240][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:39.241][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:39.242][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:39.243][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:39.244][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:39.245][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:39.246][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:39.247][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:39.248][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:39.249][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:39.250][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:39.251][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:39.252][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:39.253][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:39.254][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:39.255][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:39.259][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:39.259][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:39.260][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:39.261][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:39.262][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:39.263][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:39.264][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:39.265][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:39.267][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:39.268][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:39.268][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:39.269][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:39.270][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:39.271][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:39.272][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:39.273][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:39.274][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:39.275][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:39.276][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:39.280][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:39.281][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:39.282][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:39.283][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:39.284][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:39.285][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:39.286][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:39.286][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:39.287][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:39.288][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:39.289][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:39.290][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:39.291][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:39.292][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:39.293][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:39.294][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:39.295][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:39.296][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:39.297][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:39.301][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:39.302][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:39.303][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:39.303][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:39.304][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:39.305][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:39.306][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:39.307][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:39.309][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:39.310][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:39.311][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:39.312][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:39.313][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:39.314][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:39.314][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:39.315][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:39.316][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:39.317][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:39.318][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:39.322][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:39.323][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:39.323][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:39.324][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:39.326][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:39.327][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:39.328][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:39.328][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:39.329][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:39.330][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:39.331][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:39.332][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:39.333][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:39.334][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:39.335][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:39.336][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:39.337][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:39.338][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:39.339][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:39.343][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:39.344][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:39.344][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:39.345][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:39.346][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:39.347][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:39.348][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:39.349][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:39.350][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:39.351][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:39.352][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:39.353][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:39.354][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:39.355][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:39.356][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:39.357][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:39.358][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:39.359][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:39.360][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:39.363][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:39.364][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:39.365][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:39.366][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:39.367][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:39.369][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:39.369][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:39.370][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:39.371][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:39.372][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:39.373][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:39.374][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:39.375][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:39.376][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:39.377][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:39.378][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:39.379][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:39.380][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:39.381][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:39.385][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:39.386][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:39.386][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:39.387][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:39.388][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:39.389][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:39.390][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:39.391][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:39.392][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:39.393][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:39.394][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:39.395][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:39.396][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:39.397][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:39.398][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:39.399][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:39.400][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:39.401][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:39.402][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:39.405][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:39.406][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:39.407][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:39.408][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:39.409][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:39.411][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:39.411][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:39.412][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:39.413][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:39.414][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:39.415][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:39.416][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:39.417][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:39.418][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:39.419][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:39.420][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:39.421][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:39.422][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:39.423][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:39.427][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:39.428][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:39.428][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:39.429][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:39.430][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:39.431][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:39.432][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:39.433][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:39.434][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:39.435][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:39.436][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:39.437][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:39.438][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:39.439][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:39.440][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:39.441][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:39.442][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:39.443][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:39.444][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:39.453][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:39.454][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:39.455][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:39.456][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:39.457][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:39.458][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:39.459][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:39.460][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:39.461][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:39.462][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:39.463][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:39.464][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:39.465][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:39.466][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:39.467][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:39.468][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:39.469][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:39.470][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:39.470][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:39.474][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:39.475][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:39.476][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:39.477][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:39.478][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:39.479][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:39.480][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:39.480][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:39.482][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:39.483][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:39.484][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:39.485][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:39.486][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:39.487][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:39.487][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:39.488][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:39.489][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:39.490][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:39.491][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:39.495][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:39.495][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:39.497][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:39.497][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:39.499][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:39.500][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:39.500][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:39.501][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:39.502][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:39.503][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:39.504][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:39.505][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:39.506][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:39.507][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:39.508][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:39.509][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:39.510][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:39.511][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:39.512][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:39.515][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:39.516][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:39.517][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:39.518][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:39.519][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:39.520][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:39.521][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:39.522][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:39.523][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:39.524][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:39.525][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:39.526][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:39.527][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:39.528][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:39.529][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:39.530][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:39.531][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:39.532][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:39.532][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:39.536][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:39.537][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:39.538][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:39.539][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:39.540][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:39.541][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:39.542][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:39.543][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:39.544][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:39.545][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:39.546][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:39.547][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:39.548][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:39.549][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:39.550][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:39.551][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:39.552][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:39.553][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:39.553][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:39.557][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:39.558][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:39.559][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:39.560][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:39.561][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:39.562][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:39.563][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:39.564][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:39.565][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:39.566][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:39.567][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:39.568][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:39.569][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:39.570][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:39.571][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:39.572][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:39.573][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:39.574][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:39.575][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:39.578][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:39.579][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:39.580][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:39.581][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:39.582][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:39.583][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:39.584][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:39.585][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:39.586][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:39.587][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:39.588][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:39.589][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:39.590][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:39.591][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:39.592][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:39.593][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:39.594][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:39.595][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:39.596][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:39.600][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:39.601][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:39.601][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:39.602][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:39.603][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:39.604][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:39.605][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:39.606][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:39.607][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:39.608][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:39.609][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:39.610][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:39.611][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:39.612][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:39.613][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:39.614][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:39.615][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:39.616][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:39.617][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:39.621][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:39.621][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:39.622][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:39.623][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:39.624][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:39.625][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:39.626][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:39.627][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:39.628][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:39.629][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:39.630][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:39.631][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:39.632][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:39.633][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:39.634][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:39.635][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:39.636][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:39.637][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:39.638][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:39.642][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:39.643][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:39.644][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:39.644][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:39.645][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:39.647][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:39.647][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:39.648][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:39.649][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:39.650][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:39.651][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:39.652][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:39.653][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:39.654][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:39.655][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:39.656][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:39.657][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-08-30 16:03:39.659][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:39.660][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:39.661][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:39.664][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:39.665][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:39.666][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:39.667][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:39.668][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:39.669][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:39.670][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:39.671][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:39.672][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:39.673][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:39.674][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:39.675][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:39.676][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:39.677][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:03:39.678][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:03:39.679][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:03:39.680][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:39.681][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:39.682][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:39.683][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:39.684][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:39.685][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:39.686][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:39.687][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:39.688][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:39.689][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:39.690][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:39.690][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:39.691][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:39.692][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:39.693][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:39.694][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-30 16:03:39.695][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:39.696][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:39.697][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:39.698][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:39.699][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:39.700][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:39.701][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:39.702][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:39.703][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:39.704][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:39.705][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:39.706][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:39.707][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [7799].
biodb.DEBUG[2025-08-30 16:03:39.708][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:39.709][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:39.710][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:39.714][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:39.715][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:39.716][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:39.717][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:39.718][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:39.719][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:39.720][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:39.721][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:39.722][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:39.723][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:39.724][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:39.725][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:39.726][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:39.727][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:03:39.728][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:03:39.729][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:03:39.729][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:39.730][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:39.731][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:39.732][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:39.733][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:39.734][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:39.735][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:39.736][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:39.737][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:39.738][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:39.739][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:39.740][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:39.741][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:39.742][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:39.743][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:39.744][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-30 16:03:39.745][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:39.746][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:39.747][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:39.748][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:39.749][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:39.750][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:39.751][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:39.752][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:39.753][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:39.754][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:39.755][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:39.756][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:39.757][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [71954].
biodb.DEBUG[2025-08-30 16:03:39.758][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:39.759][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:39.760][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:39.763][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:39.764][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:39.765][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:39.766][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:39.767][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:39.774][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:39.775][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:39.776][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:39.777][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:39.778][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:39.779][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:39.780][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:39.781][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:39.782][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:03:39.783][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:03:39.784][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:03:39.785][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:39.786][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:39.787][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:39.788][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:39.789][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:39.789][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:39.790][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:39.791][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:39.792][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:39.793][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:39.794][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:39.795][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:39.796][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:39.797][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:39.798][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:39.799][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-30 16:03:39.800][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:39.801][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:39.802][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:39.803][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:39.804][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:39.805][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:39.806][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:39.807][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:39.808][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:39.809][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:39.810][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:39.810][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:39.812][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [197612].
biodb.DEBUG[2025-08-30 16:03:39.813][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-08-30 16:03:39.814][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-08-30 16:03:39.828][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:39.829][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:39.830][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:39.831][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:39.832][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:39.833][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:39.834][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:39.835][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:39.836][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:39.837][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:39.838][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:39.839][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:39.840][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:39.841][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:39.842][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:39.843][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:39.844][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:39.845][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:39.846][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:39.847][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:39.848][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:39.849][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:39.850][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:39.851][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:39.852][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:39.853][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:39.854][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:39.855][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:39.856][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:39.857][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:39.858][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:39.859][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:39.860][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:39.861][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:39.862][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:39.862][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:39.863][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:39.865][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:39.865][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:39.866][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:39.867][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:39.869][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:39.870][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:39.871][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:39.872][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:39.873][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:39.873][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:39.874][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:39.877][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:39.878][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:39.879][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:39.883][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:39.884][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:39.885][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:39.886][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:03:39.888][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.1*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-08-30 16:03:39.891][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-08-30 16:03:39.892][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-08-30 16:03:39.894][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.1%2A&searchCategory=MONOISOTOPIC%20MASS&maximumResults=0&starsCategory=ALL".
biodb.TRACE[2025-08-30 16:03:40.231][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.1%2A&searchCategory=MONOISOTOPIC%20MASS&maximumResults=0&starsCategory=ALL).
biodb.DEBUG[2025-08-30 16:03:40.813][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2025-08-30 16:03:40.817][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/a035d13a630066423fab6713592c5e52.content"
biodb.TRACE[2025-08-30 16:03:40.826][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/a035d13a630066423fab6713592c5e52.request"
biodb.DEBUG[2025-08-30 16:03:40.840][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:40.842][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:40.844][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:40.854][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:40.856][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:40.858][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:40.859][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:40.861][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:40.863][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:40.865][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:40.867][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:40.868][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:40.870][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:40.872][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:40.873][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:40.874][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:40.876][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:40.877][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:40.878][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:40.880][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:40.881][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:40.882][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:40.887][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:40.889][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:40.890][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:40.891][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:40.892][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:40.893][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:40.894][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:40.895][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:40.896][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:40.898][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:40.899][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:40.899][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:40.901][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:40.902][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:40.903][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:40.903][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:40.904][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:40.905][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:40.906][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:40.910][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:40.911][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:40.912][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:40.913][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:40.914][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:40.915][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:40.916][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:40.917][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:40.918][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:40.919][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:40.920][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:40.921][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:40.922][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:40.923][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:40.924][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:40.925][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:40.926][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:40.927][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:40.928][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:40.931][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:40.932][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:40.933][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:40.934][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:40.935][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:40.936][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:40.937][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:40.938][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:40.939][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:40.940][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:40.941][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:40.942][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:40.943][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:40.944][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:40.945][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:40.946][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:40.947][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:40.948][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:40.949][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:40.953][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:40.954][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:40.954][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:40.955][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:40.956][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:40.957][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:40.958][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:40.959][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:40.960][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:40.961][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:40.962][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:40.963][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:40.964][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:40.965][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:40.966][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:40.967][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:40.968][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:40.969][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:40.970][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:40.974][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:40.974][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:40.975][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:40.976][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:03:40.977][private$loadEntries] Creating entries from ids [1]: "9442".
biodb.DEBUG[2025-08-30 16:03:40.978][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-08-30 16:03:40.980][cch$loadFileContent] Trying to load 1 files from cache: [1]: "9442".
biodb.TRACE[2025-08-30 16:03:40.981][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-08-30 16:03:40.982][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-08-30 16:03:40.983][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-30 16:03:40.984][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-08-30 16:03:40.985][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-08-30 16:03:40.986][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-08-30 16:03:40.988][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:40.989][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:40.990][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:40.994][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:40.995][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:40.996][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:40.997][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:03:40.998][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=9442".
biodb.DEBUG[2025-08-30 16:03:41.001][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-08-30 16:03:41.002][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-08-30 16:03:41.003][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=9442".
biodb.TRACE[2025-08-30 16:03:41.366][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=9442).
biodb.DEBUG[2025-08-30 16:03:41.736][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-08-30 16:03:41.741][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/7d1576b26aed79f4c1d758a3f87c749b.content"
biodb.TRACE[2025-08-30 16:03:41.748][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/7d1576b26aed79f4c1d758a3f87c749b.request"
biodb.TRACE[2025-08-30 16:03:41.753][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/9442.xml"
biodb.DEBUG[2025-08-30 16:03:41.756][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-08-30 16:03:41.759][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-30 16:03:41.762][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-30 16:03:41.765][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:41.767][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:41.769][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:41.779][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:41.781][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:41.782][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:41.784][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:41.788][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:41.790][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:41.791][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:41.793][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:41.795][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:41.797][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:41.798][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:41.799][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:41.801][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:03:41.802][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:03:41.804][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:41.805][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:41.807][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:03:41.808][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:03:41.809][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:41.823][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:41.825][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:03:41.826][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:03:41.827][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:41.828][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:41.829][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:03:41.830][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:03:41.831][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:41.832][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:41.833][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:03:41.834][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:03:41.835][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:41.836][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:41.837][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:03:41.838][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:03:41.839][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:41.840][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:41.841][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:03:41.842][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:03:41.842][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:41.843][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:41.844][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:03:41.845][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:03:41.846][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:41.847][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:41.848][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:03:41.849][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:03:41.850][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:41.851][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:41.852][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:03:41.853][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:03:41.854][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:41.855][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:41.856][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:03:41.857][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:41.858][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:41.859][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:41.860][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:03:41.861][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:41.862][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:41.863][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:41.864][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:41.865][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:41.865][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:41.866][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:41.867][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:41.868][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:41.869][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:41.870][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:41.871][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:03:41.872][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:03:41.873][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:41.874][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:41.875][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:03:41.876][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:03:41.877][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:41.878][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:41.879][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:03:41.880][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:03:41.881][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:41.882][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:41.883][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:03:41.884][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:03:41.885][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:41.886][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:41.887][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:03:41.888][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:03:41.889][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:41.890][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:41.891][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:03:41.892][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:03:41.893][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:41.893][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:41.895][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:41.896][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:41.896][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:41.897][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:41.898][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:41.899][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:41.900][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:41.901][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:41.902][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:41.903][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:41.904][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:41.905][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:41.906][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:41.907][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:41.908][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:41.909][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:41.910][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:41.911][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:41.912][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:41.912][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:41.913][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:41.914][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:41.915][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:41.916][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:41.917][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:41.918][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:41.919][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:41.920][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:41.921][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:41.922][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:41.923][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:41.924][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:41.925][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:41.926][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:41.927][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:41.928][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:41.929][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:41.930][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:41.931][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:41.932][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:41.933][self$createEntryFromContent] Accession numbers: 9442.
biodb.TRACE[2025-08-30 16:03:41.934][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:41.935][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:41.936][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:41.936][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:41.937][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:41.938][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:41.939][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:41.940][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:41.941][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:41.942][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:41.943][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:41.944][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:41.945][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:41.946][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:41.947][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:41.951][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:41.952][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:41.953][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:41.954][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:03:41.955][private$loadEntries] Creating entries from ids [1]: "34764".
biodb.DEBUG[2025-08-30 16:03:41.956][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-08-30 16:03:41.957][cch$loadFileContent] Trying to load 1 files from cache: [1]: "34764".
biodb.TRACE[2025-08-30 16:03:41.958][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-08-30 16:03:41.959][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-08-30 16:03:41.960][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-30 16:03:41.961][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-08-30 16:03:41.962][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-08-30 16:03:41.963][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-08-30 16:03:41.966][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:41.966][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:41.967][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:41.971][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:41.972][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:41.973][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:41.974][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:03:41.975][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=34764".
biodb.DEBUG[2025-08-30 16:03:41.978][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-08-30 16:03:41.978][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-08-30 16:03:41.980][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=34764".
biodb.TRACE[2025-08-30 16:03:42.322][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=34764).
biodb.DEBUG[2025-08-30 16:03:42.671][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-08-30 16:03:42.676][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/a38508ac0dc37ed2da31f7bda33ae97f.content"
biodb.TRACE[2025-08-30 16:03:42.683][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/a38508ac0dc37ed2da31f7bda33ae97f.request"
biodb.TRACE[2025-08-30 16:03:42.688][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/34764.xml"
biodb.DEBUG[2025-08-30 16:03:42.691][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-08-30 16:03:42.694][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-30 16:03:42.697][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-30 16:03:42.700][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:42.702][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:42.704][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:42.714][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:42.716][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:42.717][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:42.719][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:42.723][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:42.725][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:42.726][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:42.728][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:42.730][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:42.731][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:42.733][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:42.734][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:42.736][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:03:42.737][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:03:42.739][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:42.740][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:42.741][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:03:42.743][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:03:42.744][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:42.745][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:42.746][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:03:42.748][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:03:42.749][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:42.750][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:42.751][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:03:42.753][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:03:42.754][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:42.755][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:42.756][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:03:42.757][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:03:42.758][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:42.759][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:42.760][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:03:42.761][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:03:42.762][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:42.763][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:42.764][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:03:42.765][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:03:42.766][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:42.767][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:42.768][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:03:42.769][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:03:42.770][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:42.771][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:42.772][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:03:42.773][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:03:42.774][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:42.775][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:42.776][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:03:42.777][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:03:42.778][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:42.779][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:42.780][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:03:42.781][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:42.782][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:42.783][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:42.784][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:03:42.785][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:42.786][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:42.787][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:42.788][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:42.789][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:42.790][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:42.790][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:42.792][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:42.793][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:42.793][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:42.794][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:42.795][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:03:42.796][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:03:42.797][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:42.798][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:42.800][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:03:42.801][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:03:42.801][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:42.802][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:42.803][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:03:42.804][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:03:42.805][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:42.806][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:42.807][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:03:42.808][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:03:42.809][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:42.810][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:42.811][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:03:42.812][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:03:42.813][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:42.814][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:42.815][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:03:42.816][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:03:42.817][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:42.818][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:42.819][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:42.820][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:42.821][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:42.822][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:42.823][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:42.824][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:42.825][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:42.826][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:42.827][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:42.828][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:42.828][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:42.829][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:42.830][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:42.831][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:42.832][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:42.833][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:42.834][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:42.835][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:42.836][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:42.837][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:42.838][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:42.839][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:42.840][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:42.841][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:42.842][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:42.843][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:42.844][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:42.844][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:42.846][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:42.847][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:42.847][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:42.848][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:42.849][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:42.850][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:42.851][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:42.852][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:42.853][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:42.854][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:42.855][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:42.856][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:42.857][self$createEntryFromContent] Accession numbers: 34764.
biodb.TRACE[2025-08-30 16:03:42.858][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:42.859][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:42.860][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:42.861][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:42.862][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:42.871][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:42.872][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:42.873][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:42.874][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:42.875][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:42.876][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:42.877][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:42.878][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-08-30 16:03:42.880][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:42.881][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:42.882][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:42.886][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:42.887][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:42.887][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:42.888][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:42.889][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:42.890][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:42.891][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:42.892][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:42.893][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:42.894][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:42.895][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:42.896][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:42.897][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:42.898][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:03:42.899][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:03:42.899][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:03:42.900][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:42.901][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:42.902][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:42.903][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:42.904][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:42.905][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:42.906][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:42.907][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:42.908][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:42.909][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:42.910][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:42.910][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:42.911][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:42.912][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:42.913][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:42.914][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-30 16:03:42.915][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:42.916][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:42.917][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:42.918][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:42.919][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:42.920][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:42.921][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:42.922][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:42.922][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:42.923][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:42.924][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:42.925][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:42.927][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [3014].
biodb.DEBUG[2025-08-30 16:03:42.928][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:42.928][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:42.929][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:42.933][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:42.934][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:42.935][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:42.936][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:42.937][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:42.938][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:42.939][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:42.939][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:42.940][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:42.941][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:42.942][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:42.943][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:42.944][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:42.945][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:03:42.946][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:03:42.947][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:03:42.948][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:42.949][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:42.950][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:42.951][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:42.951][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:42.952][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:42.953][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:42.954][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:42.955][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:42.956][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:42.957][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:42.958][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:42.959][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:42.960][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:42.961][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:42.962][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-30 16:03:42.963][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:42.964][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:42.965][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:42.966][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:42.967][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:42.968][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:42.968][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:42.969][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:42.970][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:42.971][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:42.972][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:42.973][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:42.974][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [7799].
biodb.DEBUG[2025-08-30 16:03:42.975][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:42.976][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:42.977][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:42.981][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:42.982][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:42.983][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:42.984][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:42.985][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:42.986][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:42.987][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:42.988][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:42.989][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:42.990][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:42.991][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:42.991][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:42.992][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:42.993][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:03:42.994][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:03:42.995][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:03:42.996][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:42.997][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:42.998][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:42.999][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:43.000][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:43.001][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:43.002][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:43.003][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:43.004][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:43.005][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:43.005][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:43.006][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:43.007][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:43.008][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:43.009][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:43.010][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-30 16:03:43.011][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:43.012][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:43.013][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:43.014][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:43.015][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:43.016][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:43.017][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:43.018][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:43.019][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:43.020][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:43.021][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:43.021][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:43.023][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [34764].
biodb.DEBUG[2025-08-30 16:03:43.024][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-08-30 16:03:43.025][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2025-08-30 16:03:43.026][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:43.027][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:43.028][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:43.032][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:43.033][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:43.034][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:43.035][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:03:43.037][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=480*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-08-30 16:03:43.040][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-08-30 16:03:43.041][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-08-30 16:03:43.043][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=480%2A&searchCategory=MONOISOTOPIC%20MASS&maximumResults=0&starsCategory=ALL".
biodb.TRACE[2025-08-30 16:03:43.383][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=480%2A&searchCategory=MONOISOTOPIC%20MASS&maximumResults=0&starsCategory=ALL).
biodb.DEBUG[2025-08-30 16:03:44.063][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2025-08-30 16:03:44.067][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/365d4ea5e0e90826806fec708da6c9ab.content"
biodb.TRACE[2025-08-30 16:03:44.076][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/365d4ea5e0e90826806fec708da6c9ab.request"
biodb.DEBUG[2025-08-30 16:03:44.090][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:44.092][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:44.095][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:44.104][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:44.106][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:44.107][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:44.109][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:03:44.111][private$loadEntries] Creating entries from ids [1]: "2535".
biodb.DEBUG[2025-08-30 16:03:44.113][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-08-30 16:03:44.115][cch$loadFileContent] Trying to load 1 files from cache: [1]: "2535".
biodb.TRACE[2025-08-30 16:03:44.117][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-08-30 16:03:44.119][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-08-30 16:03:44.121][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-30 16:03:44.122][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-08-30 16:03:44.124][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-08-30 16:03:44.125][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-08-30 16:03:44.128][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:44.129][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:44.131][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:44.136][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:44.137][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:44.138][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:44.139][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:03:44.140][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2535".
biodb.DEBUG[2025-08-30 16:03:44.143][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-08-30 16:03:44.144][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-08-30 16:03:44.146][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2535".
biodb.TRACE[2025-08-30 16:03:44.689][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2535).
biodb.DEBUG[2025-08-30 16:03:45.037][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-08-30 16:03:45.041][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/e1d9514645c3005d4e4f643b2d18f099.content"
biodb.TRACE[2025-08-30 16:03:45.049][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/e1d9514645c3005d4e4f643b2d18f099.request"
biodb.TRACE[2025-08-30 16:03:45.054][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/2535.xml"
biodb.DEBUG[2025-08-30 16:03:45.057][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-08-30 16:03:45.060][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-30 16:03:45.062][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-30 16:03:45.066][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:45.068][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:45.070][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:45.080][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:45.082][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:45.083][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:45.085][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:45.089][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:45.091][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:45.092][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:45.094][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:45.096][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:45.097][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:45.099][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:45.100][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:45.102][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:03:45.103][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:03:45.104][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:45.106][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:45.107][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:03:45.109][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:03:45.110][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:45.111][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:45.112][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:03:45.114][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:03:45.115][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:45.116][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:45.117][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:03:45.119][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:03:45.120][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:45.121][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:45.122][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:03:45.123][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:03:45.124][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:45.125][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:45.126][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:03:45.127][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:03:45.128][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:45.129][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:45.130][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:03:45.131][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:03:45.132][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:45.133][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:45.134][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:03:45.135][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:03:45.136][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:45.137][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:45.138][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:03:45.139][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:03:45.140][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:45.141][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:45.142][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:03:45.143][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:03:45.144][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:45.144][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:45.145][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:03:45.146][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:45.147][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:45.148][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:45.149][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:03:45.150][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:45.151][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:45.152][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:45.153][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:45.154][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:45.155][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:45.156][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:45.157][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:45.158][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:45.159][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:45.160][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:45.161][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:03:45.178][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:03:45.180][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:45.181][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:45.182][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:03:45.183][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:03:45.184][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:45.185][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:45.186][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:03:45.187][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:03:45.188][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:45.189][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:45.190][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:03:45.191][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:03:45.192][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:45.193][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:45.194][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:03:45.195][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:03:45.196][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:45.197][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:45.198][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:03:45.199][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:03:45.200][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:45.200][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:45.202][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:45.203][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:45.203][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:45.204][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:45.205][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:45.206][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:45.207][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:45.208][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:45.209][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:45.210][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:45.211][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:45.212][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:45.213][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:45.214][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:45.215][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:45.215][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:45.216][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:45.217][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:45.218][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:45.219][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:45.220][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:45.221][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:45.222][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:45.223][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:45.224][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:45.225][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:45.226][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:45.227][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:45.228][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:45.229][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:45.230][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:45.230][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:45.231][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:45.232][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:45.233][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:45.234][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:45.235][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:45.236][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:45.237][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:45.238][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:45.239][self$createEntryFromContent] Accession numbers: 2535.
biodb.TRACE[2025-08-30 16:03:45.240][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:45.241][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:45.242][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:45.243][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:45.244][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:45.245][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:45.245][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:45.246][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:45.247][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:45.248][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:45.249][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:45.250][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:45.251][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:45.252][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:45.253][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:45.257][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:45.258][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:45.259][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:45.259][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:45.260][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:45.262][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:45.262][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:45.263][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:45.264][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:45.265][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:45.266][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:45.267][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:45.268][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:45.269][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:45.270][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:45.271][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:45.272][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:45.273][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:45.274][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:45.278][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:45.278][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:45.279][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:45.280][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:03:45.281][private$loadEntries] Creating entries from ids [1]: "5525".
biodb.DEBUG[2025-08-30 16:03:45.282][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-08-30 16:03:45.284][cch$loadFileContent] Trying to load 1 files from cache: [1]: "5525".
biodb.TRACE[2025-08-30 16:03:45.285][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-08-30 16:03:45.286][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-08-30 16:03:45.287][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-30 16:03:45.288][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-08-30 16:03:45.289][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-08-30 16:03:45.290][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-08-30 16:03:45.292][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:45.293][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:45.294][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:45.298][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:45.299][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:45.300][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:45.300][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:03:45.302][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=5525".
biodb.DEBUG[2025-08-30 16:03:45.304][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-08-30 16:03:45.305][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-08-30 16:03:45.306][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=5525".
biodb.TRACE[2025-08-30 16:03:45.647][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=5525).
biodb.DEBUG[2025-08-30 16:03:45.998][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-08-30 16:03:46.002][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/8c1563abc6b93d34a6b6b66375881583.content"
biodb.TRACE[2025-08-30 16:03:46.009][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/8c1563abc6b93d34a6b6b66375881583.request"
biodb.TRACE[2025-08-30 16:03:46.014][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/5525.xml"
biodb.DEBUG[2025-08-30 16:03:46.018][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-08-30 16:03:46.020][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-30 16:03:46.023][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-30 16:03:46.027][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:46.029][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:46.031][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:46.040][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:46.042][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:46.044][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:46.046][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:46.049][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:46.051][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:46.053][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:46.054][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:46.056][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:46.058][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:46.059][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:46.061][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:46.062][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:03:46.064][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:03:46.065][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:46.066][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:46.068][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:03:46.069][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:03:46.070][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:46.071][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:46.073][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:03:46.074][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:03:46.075][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:46.076][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:46.078][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:03:46.079][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:03:46.080][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:46.081][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:46.082][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:03:46.083][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:03:46.084][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:46.085][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:46.086][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:03:46.087][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:03:46.088][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:46.089][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:46.090][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:03:46.091][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:03:46.092][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:46.093][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:46.094][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:03:46.095][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:03:46.096][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:46.097][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:46.098][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:03:46.099][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:03:46.100][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:46.101][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:46.102][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:03:46.103][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:03:46.104][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:46.105][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:46.106][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:03:46.107][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:46.108][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:46.109][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:46.110][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:03:46.111][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:46.112][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:46.113][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:46.114][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:46.115][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:46.116][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:46.117][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:46.118][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:46.119][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:46.120][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:46.120][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:46.121][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:03:46.122][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:03:46.123][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:46.124][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:46.126][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:03:46.127][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:03:46.127][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:46.128][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:46.129][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:03:46.130][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:03:46.131][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:46.132][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:46.133][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:03:46.134][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:03:46.135][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:46.136][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:46.137][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:03:46.138][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:03:46.139][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:46.140][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:46.141][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:03:46.142][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:03:46.143][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:46.144][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:46.145][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:46.146][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:46.147][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:46.148][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:46.149][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:46.150][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:46.151][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:46.152][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:46.153][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:46.154][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:46.154][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:46.155][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:46.156][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:46.157][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:46.158][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:46.159][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:46.160][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:46.161][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:46.162][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:46.163][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:46.164][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:46.165][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:46.166][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:46.167][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:46.168][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:46.169][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:46.170][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:46.171][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:46.172][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:46.173][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:46.174][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:46.174][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:46.175][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:46.176][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:46.177][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:46.178][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:46.179][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:46.180][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:46.181][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:46.182][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:46.183][self$createEntryFromContent] Accession numbers: 5525.
biodb.TRACE[2025-08-30 16:03:46.184][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:46.185][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:46.186][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:46.187][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:46.188][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:46.189][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:46.190][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:46.191][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:46.192][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:46.193][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:46.193][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:46.194][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:46.195][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:46.196][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:46.197][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:46.201][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:46.202][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:46.203][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:46.204][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:46.205][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:46.206][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:46.207][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:46.208][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:46.209][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:46.210][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:46.210][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:46.211][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:46.212][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:46.213][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:46.214][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:46.215][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:46.216][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-08-30 16:03:46.218][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:46.219][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:46.228][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:46.233][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:46.234][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:46.235][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:46.236][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:46.237][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:46.238][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:46.239][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:46.240][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:46.241][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:46.242][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:46.242][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:46.243][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:46.244][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:46.245][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:03:46.246][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:03:46.247][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:03:46.248][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:46.249][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:46.250][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:46.251][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:46.252][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:46.252][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:46.253][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:46.254][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:46.255][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:46.256][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:46.257][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:46.258][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:46.259][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:46.260][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:46.261][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:46.262][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-30 16:03:46.263][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:46.264][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:46.264][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:46.265][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:46.266][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:46.267][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:46.268][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:46.269][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:46.270][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:46.271][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:46.272][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:46.273][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:46.274][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [2535].
biodb.DEBUG[2025-08-30 16:03:46.275][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:46.276][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:46.277][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:46.281][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:46.281][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:46.282][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:46.283][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:46.284][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:46.285][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:46.286][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:46.287][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:46.288][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:46.289][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:46.290][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:46.291][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:46.292][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:46.292][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:03:46.293][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:03:46.294][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:03:46.295][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:46.296][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:46.297][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:46.298][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:46.299][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:46.300][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:46.302][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:46.303][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:46.304][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:46.305][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:46.306][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:46.307][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:46.308][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:46.309][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:46.310][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:46.311][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-30 16:03:46.312][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:46.313][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:46.314][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:46.315][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:46.316][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:46.317][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:46.318][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:46.319][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:46.319][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:46.320][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:46.321][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:46.322][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:46.324][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4781].
biodb.DEBUG[2025-08-30 16:03:46.325][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:46.326][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:46.326][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:46.331][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:46.331][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:46.332][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:46.333][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:46.334][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:46.335][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:46.336][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:46.337][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:46.338][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:46.339][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:46.340][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:46.341][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:46.342][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:46.343][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:03:46.344][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:03:46.345][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:03:46.346][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:46.347][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:46.348][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:46.349][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:46.349][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:46.350][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:46.351][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:46.352][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:46.353][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:46.354][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:46.355][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:46.356][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:46.357][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:46.358][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:46.359][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:46.360][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-30 16:03:46.361][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:46.362][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:46.363][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:46.364][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:46.365][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:46.366][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:46.367][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:46.368][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:46.369][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:46.370][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:46.371][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:46.372][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:46.373][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [16587].
biodb.DEBUG[2025-08-30 16:03:46.374][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-08-30 16:03:46.375][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2025-08-30 16:03:46.377][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:46.378][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:46.378][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:46.383][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:46.383][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:46.384][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:46.385][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:03:46.388][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=409.9*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-08-30 16:03:46.391][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-08-30 16:03:46.392][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-08-30 16:03:46.394][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=409.9%2A&searchCategory=MONOISOTOPIC%20MASS&maximumResults=0&starsCategory=ALL".
biodb.TRACE[2025-08-30 16:03:46.728][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=409.9%2A&searchCategory=MONOISOTOPIC%20MASS&maximumResults=0&starsCategory=ALL).
biodb.DEBUG[2025-08-30 16:03:47.064][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2025-08-30 16:03:47.068][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/7b0416ab2d5cbf869f248000c039a8e8.content"
biodb.TRACE[2025-08-30 16:03:47.076][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/7b0416ab2d5cbf869f248000c039a8e8.request"
biodb.DEBUG[2025-08-30 16:03:47.082][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:47.084][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:47.086][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:47.096][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:47.098][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:47.100][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:47.102][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:03:47.105][private$loadEntries] Creating entries from ids [1]: "31303".
biodb.DEBUG[2025-08-30 16:03:47.107][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-08-30 16:03:47.110][cch$loadFileContent] Trying to load 1 files from cache: [1]: "31303".
biodb.TRACE[2025-08-30 16:03:47.112][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-08-30 16:03:47.114][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-08-30 16:03:47.116][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-30 16:03:47.118][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-08-30 16:03:47.120][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-08-30 16:03:47.121][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-08-30 16:03:47.125][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:47.126][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:47.127][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:47.133][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:47.134][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:47.135][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:47.137][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:03:47.138][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=31303".
biodb.DEBUG[2025-08-30 16:03:47.141][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-08-30 16:03:47.142][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-08-30 16:03:47.144][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=31303".
biodb.TRACE[2025-08-30 16:03:47.483][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=31303).
biodb.DEBUG[2025-08-30 16:03:47.824][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-08-30 16:03:47.828][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/99089a071b7e4bcfb0ef9a12b49b39b2.content"
biodb.TRACE[2025-08-30 16:03:47.835][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/99089a071b7e4bcfb0ef9a12b49b39b2.request"
biodb.TRACE[2025-08-30 16:03:47.841][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/31303.xml"
biodb.DEBUG[2025-08-30 16:03:47.844][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-08-30 16:03:47.847][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-30 16:03:47.849][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-30 16:03:47.853][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:47.855][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:47.857][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:47.866][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:47.868][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:47.870][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:47.872][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:47.875][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:47.877][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:47.879][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:47.880][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:47.882][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:47.884][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:47.885][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:47.887][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:47.888][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:03:47.890][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:03:47.891][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:47.892][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:47.894][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:03:47.895][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:03:47.896][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:47.898][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:47.899][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:03:47.900][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:03:47.901][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:47.902][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:47.904][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:03:47.905][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:03:47.906][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:47.907][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:47.908][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:03:47.909][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:03:47.910][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:47.911][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:47.912][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:03:47.914][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:03:47.915][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:47.915][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:47.916][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:03:47.917][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:03:47.918][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:47.919][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:47.920][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:03:47.921][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:03:47.922][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:47.923][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:47.924][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:03:47.925][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:03:47.926][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:47.927][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:47.928][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:03:47.929][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:47.930][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:47.931][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:47.932][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:03:47.933][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:47.934][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:47.935][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:47.936][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:47.937][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:47.938][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:47.939][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:47.940][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:47.941][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:47.942][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:47.943][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:47.944][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:03:47.945][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:03:47.946][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:47.947][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:47.948][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:03:47.949][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:03:47.950][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:47.951][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:47.952][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:03:47.953][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:03:47.954][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:47.955][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:47.956][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:03:47.957][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:03:47.958][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:47.959][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:47.960][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:03:47.961][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:03:47.962][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:47.962][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:47.964][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:03:47.976][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:03:47.977][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:47.979][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:47.980][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:47.981][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:47.982][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:47.983][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:47.984][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:47.985][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:47.986][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:47.987][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:47.988][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:47.989][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:47.990][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:47.991][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:47.992][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:47.993][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:47.993][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:47.994][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:47.995][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:47.996][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:47.997][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:47.998][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:47.999][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:48.000][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:48.001][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:48.002][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:48.003][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:48.004][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:48.005][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:48.005][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:48.007][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:48.008][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:48.008][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:48.009][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:48.010][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:48.011][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:48.012][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:48.013][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:48.014][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:48.015][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:48.016][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:48.017][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:48.018][self$createEntryFromContent] Accession numbers: 31303.
biodb.TRACE[2025-08-30 16:03:48.019][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:48.020][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:48.021][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:48.022][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:48.022][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:48.023][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:48.024][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:48.025][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:48.026][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:48.027][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:48.028][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:48.029][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:48.030][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:48.031][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:48.032][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:48.036][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:48.037][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:48.037][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:48.038][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:03:48.039][private$loadEntries] Creating entries from ids [1]: "37118".
biodb.DEBUG[2025-08-30 16:03:48.040][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-08-30 16:03:48.042][cch$loadFileContent] Trying to load 1 files from cache: [1]: "37118".
biodb.TRACE[2025-08-30 16:03:48.043][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-08-30 16:03:48.044][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-08-30 16:03:48.045][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-30 16:03:48.046][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-08-30 16:03:48.047][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-08-30 16:03:48.048][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-08-30 16:03:48.050][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:48.051][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:48.052][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:48.056][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:48.057][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:48.058][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:48.058][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:03:48.059][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=37118".
biodb.DEBUG[2025-08-30 16:03:48.062][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-08-30 16:03:48.063][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-08-30 16:03:48.064][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=37118".
biodb.TRACE[2025-08-30 16:03:48.398][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=37118).
biodb.DEBUG[2025-08-30 16:03:48.736][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-08-30 16:03:48.740][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/37e09c6197385dffaf0a241198ec6309.content"
biodb.TRACE[2025-08-30 16:03:48.747][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/37e09c6197385dffaf0a241198ec6309.request"
biodb.TRACE[2025-08-30 16:03:48.753][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/37118.xml"
biodb.DEBUG[2025-08-30 16:03:48.756][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-08-30 16:03:48.758][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-30 16:03:48.761][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-30 16:03:48.765][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:48.767][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:48.769][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:48.778][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:48.780][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:48.782][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:48.784][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:48.788][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:48.789][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:48.791][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:48.793][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:48.794][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:48.796][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:48.798][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:48.799][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:48.800][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:03:48.802][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:03:48.803][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:48.805][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:48.806][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:03:48.807][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:03:48.809][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:48.810][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:48.811][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:03:48.812][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:03:48.814][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:48.815][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:48.816][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:03:48.817][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:03:48.818][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:48.819][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:48.820][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:03:48.822][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:03:48.823][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:48.824][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:48.825][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:03:48.826][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:03:48.827][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:48.828][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:48.829][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:03:48.830][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:03:48.831][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:48.832][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:48.833][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:03:48.834][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:03:48.835][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:48.836][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:48.837][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:03:48.838][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:03:48.839][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:48.839][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:48.841][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:03:48.842][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:48.843][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:48.843][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:48.845][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:03:48.846][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:48.847][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:48.847][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:48.848][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:48.849][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:48.850][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:48.851][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:48.852][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:48.853][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:48.854][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:48.855][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:48.856][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:03:48.857][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:03:48.858][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:48.859][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:48.860][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:03:48.861][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:03:48.862][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:48.863][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:48.864][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:03:48.865][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:03:48.866][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:48.867][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:48.868][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:03:48.869][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:03:48.870][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:48.871][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:48.872][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:03:48.873][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:03:48.874][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:48.875][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:48.876][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:03:48.877][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:03:48.878][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:48.879][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:48.880][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:48.881][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:48.882][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:48.883][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:48.884][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:48.885][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:48.886][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:48.886][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:48.887][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:48.888][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:48.889][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:48.890][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:48.891][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:48.892][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:48.893][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:48.894][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:48.895][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:48.896][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:48.897][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:48.898][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:48.899][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:48.900][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:48.901][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:48.902][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:48.902][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:48.903][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:48.904][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:48.905][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:48.906][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:48.907][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:48.908][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:48.909][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:48.910][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:48.911][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:48.912][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:48.913][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:48.914][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:48.915][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:48.916][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:48.917][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:48.918][self$createEntryFromContent] Accession numbers: 37118.
biodb.TRACE[2025-08-30 16:03:48.919][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:48.920][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:48.921][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:48.922][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:48.923][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:48.924][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:48.924][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:48.925][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:48.926][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:48.927][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:48.928][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:48.929][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:48.930][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:48.931][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:48.932][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:48.936][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:48.937][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:48.938][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:48.939][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:03:48.940][private$loadEntries] Creating entries from ids [1]: "39424".
biodb.DEBUG[2025-08-30 16:03:48.941][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-08-30 16:03:48.942][cch$loadFileContent] Trying to load 1 files from cache: [1]: "39424".
biodb.TRACE[2025-08-30 16:03:48.943][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-08-30 16:03:48.944][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-08-30 16:03:48.945][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-30 16:03:48.946][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-08-30 16:03:48.947][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-08-30 16:03:48.948][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-08-30 16:03:48.951][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:48.951][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:48.952][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:48.956][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:48.957][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:48.958][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:48.959][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:03:48.960][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=39424".
biodb.DEBUG[2025-08-30 16:03:48.963][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-08-30 16:03:48.963][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-08-30 16:03:48.965][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=39424".
biodb.TRACE[2025-08-30 16:03:49.298][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=39424).
biodb.DEBUG[2025-08-30 16:03:49.640][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-08-30 16:03:49.644][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/da5bac251de02a0ce66c3d69c0d59bb8.content"
biodb.TRACE[2025-08-30 16:03:49.651][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/da5bac251de02a0ce66c3d69c0d59bb8.request"
biodb.TRACE[2025-08-30 16:03:49.657][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/39424.xml"
biodb.DEBUG[2025-08-30 16:03:49.660][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-08-30 16:03:49.663][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-30 16:03:49.665][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-30 16:03:49.669][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:49.671][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:49.673][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:49.682][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:49.684][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:49.686][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:49.687][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:49.691][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:49.693][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:49.694][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:49.696][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:49.698][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:49.700][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:49.701][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:49.702][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:49.704][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:03:49.719][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:03:49.720][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:49.721][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:49.723][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:03:49.724][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:03:49.725][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:49.726][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:49.727][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:03:49.729][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:03:49.729][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:49.730][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:49.732][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:03:49.733][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:03:49.734][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:49.734][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:49.735][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:03:49.736][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:03:49.737][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:49.738][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:49.739][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:03:49.740][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:03:49.741][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:49.742][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:49.743][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:03:49.744][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:03:49.745][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:49.746][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:49.747][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:03:49.748][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:03:49.749][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:49.750][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:49.751][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:03:49.752][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:03:49.753][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:49.754][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:49.755][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:03:49.756][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:49.757][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:49.757][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:49.759][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:03:49.760][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:49.760][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:49.761][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:49.762][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:49.763][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:49.764][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:49.765][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:49.766][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:49.767][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:49.768][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:49.769][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:49.770][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:03:49.771][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:03:49.772][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:49.773][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:49.774][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:03:49.775][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:03:49.776][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:49.777][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:49.778][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:03:49.779][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:03:49.780][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:49.781][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:49.782][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:03:49.783][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:03:49.784][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:49.784][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:49.785][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:03:49.786][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:03:49.787][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:49.788][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:49.789][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:03:49.790][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:03:49.791][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:49.792][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:49.793][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:49.794][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:49.795][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:49.796][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:49.797][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:49.798][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:49.799][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:49.800][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:49.801][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:49.802][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:49.803][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:49.803][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:49.804][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:49.805][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:49.806][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:49.807][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:49.808][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:49.809][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:49.810][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:49.811][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:49.812][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:49.813][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:49.814][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:49.815][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:49.816][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:49.817][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:49.818][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:49.819][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:49.820][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:49.821][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:49.822][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:49.823][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:49.824][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:49.825][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:49.825][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:49.826][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:49.827][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:49.828][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:49.829][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:49.830][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:49.831][self$createEntryFromContent] Accession numbers: 39424.
biodb.TRACE[2025-08-30 16:03:49.832][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:49.833][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:49.834][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:49.835][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:49.836][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:49.837][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:49.838][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:49.839][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:49.840][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:49.841][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:49.842][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:49.843][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:49.844][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:49.844][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:49.845][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:49.849][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:49.850][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:49.851][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:49.852][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:03:49.853][private$loadEntries] Creating entries from ids [1]: "81767".
biodb.DEBUG[2025-08-30 16:03:49.854][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-08-30 16:03:49.856][cch$loadFileContent] Trying to load 1 files from cache: [1]: "81767".
biodb.TRACE[2025-08-30 16:03:49.857][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-08-30 16:03:49.858][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-08-30 16:03:49.859][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-30 16:03:49.860][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-08-30 16:03:49.861][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-08-30 16:03:49.862][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-08-30 16:03:49.864][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:49.865][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:49.866][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:49.870][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:49.871][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:49.872][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:49.872][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:03:49.874][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=81767".
biodb.DEBUG[2025-08-30 16:03:49.876][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-08-30 16:03:49.877][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-08-30 16:03:49.878][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=81767".
biodb.TRACE[2025-08-30 16:03:50.222][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=81767).
biodb.DEBUG[2025-08-30 16:03:50.570][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-08-30 16:03:50.575][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/6d9dc9192959d977e17745ebfa06bb73.content"
biodb.TRACE[2025-08-30 16:03:50.582][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/6d9dc9192959d977e17745ebfa06bb73.request"
biodb.TRACE[2025-08-30 16:03:50.587][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/81767.xml"
biodb.DEBUG[2025-08-30 16:03:50.590][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-08-30 16:03:50.593][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-30 16:03:50.596][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-30 16:03:50.599][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:50.601][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:50.603][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:50.613][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:50.614][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:50.616][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:50.618][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:50.622][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:50.624][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:50.625][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:50.627][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:50.629][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:50.630][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:50.632][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:50.633][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:50.635][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:03:50.636][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:03:50.637][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:50.639][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:50.640][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:03:50.642][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:03:50.643][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:50.644][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:50.645][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:03:50.646][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:03:50.647][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:50.649][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:50.650][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:03:50.651][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:03:50.652][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:50.653][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:50.654][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:03:50.655][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:03:50.656][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:50.657][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:50.659][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:03:50.660][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:03:50.661][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:50.662][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:50.663][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:03:50.664][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:03:50.665][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:50.666][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:50.667][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:03:50.668][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:03:50.669][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:50.670][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:50.671][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:03:50.672][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:03:50.672][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:50.673][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:50.674][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:03:50.676][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:03:50.676][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:50.677][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:50.678][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:03:50.679][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:50.680][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:50.681][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:50.682][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:03:50.683][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:50.684][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:50.685][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:50.686][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:50.687][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:50.688][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:50.689][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:50.690][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:50.691][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:50.692][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:50.693][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:50.694][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:03:50.695][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:03:50.696][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:50.697][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:50.698][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:03:50.699][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:03:50.700][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:50.701][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:50.702][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:03:50.703][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:03:50.704][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:50.705][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:50.706][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:03:50.707][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:03:50.708][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:50.709][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:50.710][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:03:50.711][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:03:50.712][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:50.713][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:50.714][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:03:50.715][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:03:50.716][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:50.716][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:50.718][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:50.719][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:50.719][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:50.720][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:50.721][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:50.722][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:50.723][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:50.724][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:50.725][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:50.726][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:50.727][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:50.728][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:50.729][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:50.730][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:50.731][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:50.732][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:50.733][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:50.734][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:50.735][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:50.736][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:50.736][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:50.737][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:50.738][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:50.739][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:50.740][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:50.741][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:50.742][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:50.743][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:50.744][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:50.745][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:50.746][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:50.747][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:50.748][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:50.749][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:50.750][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:50.751][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:50.752][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:50.753][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:50.754][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:50.755][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:50.755][self$createEntryFromContent] Accession numbers: 81767.
biodb.TRACE[2025-08-30 16:03:50.757][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:50.758][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:50.758][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:50.759][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:50.760][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:50.771][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:50.772][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:50.773][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:50.774][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:50.775][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:50.776][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:50.777][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:50.778][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:50.779][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:50.780][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:50.784][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:50.785][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:50.786][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:50.787][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:50.788][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:50.789][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:50.790][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:50.791][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:50.792][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:50.793][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:50.794][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:50.795][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:50.796][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:50.797][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:50.797][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:50.798][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:50.799][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-08-30 16:03:50.801][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:50.802][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:50.803][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:50.807][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:50.808][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:50.808][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:50.809][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:50.810][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:50.811][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:50.812][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:50.813][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:50.814][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:50.815][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:50.816][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:50.817][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:50.818][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:50.819][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:03:50.820][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:03:50.821][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:03:50.821][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:50.822][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:50.823][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:50.824][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:50.825][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:50.826][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:50.827][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:50.828][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:50.829][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:50.830][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:50.831][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:50.832][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:50.833][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:50.834][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:50.834][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:50.835][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-30 16:03:50.836][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:50.837][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:50.838][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:50.839][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:50.840][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:50.841][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:50.842][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:50.843][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:50.844][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:50.845][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:50.846][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:50.847][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:50.848][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [31303].
biodb.DEBUG[2025-08-30 16:03:50.849][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:50.850][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:50.851][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:50.855][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:50.856][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:50.856][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:50.857][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:50.858][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:50.859][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:50.860][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:50.861][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:50.862][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:50.863][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:50.864][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:50.865][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:50.866][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:50.867][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:03:50.868][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:03:50.869][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:03:50.870][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:50.871][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:50.872][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:50.873][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:50.873][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:50.874][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:50.875][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:50.876][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:50.877][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:50.878][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:50.879][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:50.880][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:50.881][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:50.882][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:50.883][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:50.884][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-30 16:03:50.885][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:50.886][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:50.887][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:50.888][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:50.889][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:50.890][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:50.891][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:50.892][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:50.892][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:50.893][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:50.894][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:50.895][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:50.897][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [81767].
biodb.DEBUG[2025-08-30 16:03:50.898][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:50.898][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:50.899][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:50.904][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:50.904][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:50.905][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:50.906][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:50.907][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:50.908][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:50.909][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:50.910][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:50.911][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:50.912][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:50.913][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:50.914][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:50.915][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:50.916][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:03:50.917][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:03:50.918][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:03:50.919][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:50.919][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:50.921][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:50.921][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:50.922][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:50.923][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:50.924][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:50.925][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:50.926][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:50.927][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:50.928][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:50.929][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:50.930][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:50.931][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:50.932][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:50.933][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-30 16:03:50.934][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:50.935][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:50.936][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:50.936][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:50.937][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:50.938][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:50.939][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:50.940][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:50.941][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:50.942][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:50.943][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:50.944][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:50.945][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [131378].
biodb.DEBUG[2025-08-30 16:03:50.946][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-08-30 16:03:50.947][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2025-08-30 16:03:50.964][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:50.965][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:50.966][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:50.970][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:50.971][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:50.971][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:50.972][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:03:50.975][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.38*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-08-30 16:03:50.978][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-08-30 16:03:50.979][cch$loadFileContent] Trying to load 1 files from cache: [1]: "49f51d93ac229648aa454636918ce386".
biodb.TRACE[2025-08-30 16:03:50.980][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-08-30 16:03:50.981][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/49f51d93ac229648aa454636918ce386.content".
biodb.DEBUG[2025-08-30 16:03:50.984][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-08-30 16:03:50.987][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-08-30 16:03:50.988][cch$loadFileContent] Trying to load 1 files from cache: [1]: "121ea95906eb67bed88948c362686e4f".
biodb.TRACE[2025-08-30 16:03:50.989][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-08-30 16:03:50.990][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/121ea95906eb67bed88948c362686e4f.content".
biodb.DEBUG[2025-08-30 16:03:50.993][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:50.993][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:50.994][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:50.998][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:50.999][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:51.000][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:51.001][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:51.002][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:51.003][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:51.004][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:51.005][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:51.006][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:51.007][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:51.007][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:51.008][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:51.009][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:51.010][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:51.011][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:51.012][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:51.013][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:51.014][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:51.015][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:51.019][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:51.020][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:51.020][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:51.021][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:51.022][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:51.023][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:51.024][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:51.025][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:51.026][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:51.027][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:51.028][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:51.029][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:51.030][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:51.031][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:51.032][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:51.033][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:51.034][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:51.035][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:51.035][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:51.039][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:51.040][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:51.041][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:51.042][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:51.043][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:51.044][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:51.045][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:51.046][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:51.047][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:51.048][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:51.049][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:51.050][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:51.051][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:51.052][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:51.052][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:51.053][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:51.054][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-08-30 16:03:51.056][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:51.057][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:51.058][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:51.061][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:51.062][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:51.063][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:51.064][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:51.065][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:51.066][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:51.067][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:51.068][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:51.069][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:51.070][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:51.071][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:51.072][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:51.073][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:51.074][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:03:51.075][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:03:51.075][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:03:51.076][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:51.077][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:51.078][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:51.079][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:51.080][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:51.081][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:51.082][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:51.089][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:51.090][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:51.091][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:51.092][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:51.093][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:51.094][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:51.095][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:51.096][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:51.097][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-30 16:03:51.098][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:51.099][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:51.100][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:51.101][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:51.102][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:51.103][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:51.104][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:51.104][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:51.105][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:51.106][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:51.107][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:51.108][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:51.109][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4648].
biodb.DEBUG[2025-08-30 16:03:51.110][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:51.111][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:51.112][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:51.116][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:51.117][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:51.118][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:51.118][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:51.120][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:51.121][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:51.121][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:51.122][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:51.123][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:51.124][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:51.125][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:51.126][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:51.127][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:51.128][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:03:51.129][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:03:51.130][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:03:51.131][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:51.131][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:51.132][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:51.133][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:51.134][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:51.135][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:51.136][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:51.137][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:51.138][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:51.139][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:51.140][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:51.141][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:51.142][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:51.143][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:51.143][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:51.144][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-30 16:03:51.145][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:51.146][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:51.147][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:51.148][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:51.149][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:51.150][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:51.151][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:51.152][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:51.153][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:51.154][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:51.155][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:51.156][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:51.157][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-08-30 16:03:51.158][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:51.159][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:51.160][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:51.163][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:51.164][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:51.165][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:51.166][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:51.167][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:51.168][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:51.169][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:51.170][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:51.171][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:51.172][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:51.173][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:51.174][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:51.175][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:51.176][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:03:51.177][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:03:51.177][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:03:51.178][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:51.179][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:51.180][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:51.181][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:51.182][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:51.183][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:51.184][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:51.185][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:51.186][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:51.187][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:51.188][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:51.189][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:51.190][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:51.191][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:51.192][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:51.192][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-30 16:03:51.193][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:51.195][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:51.195][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:51.196][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:51.197][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:51.198][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:51.199][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:51.200][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:51.201][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:51.202][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:51.203][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:51.204][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:51.205][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [62447].
biodb.DEBUG[2025-08-30 16:03:51.206][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-08-30 16:03:51.207][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2025-08-30 16:03:51.209][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:51.210][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:51.211][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:51.215][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:51.216][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:51.216][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:51.217][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:03:51.220][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=480.29*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-08-30 16:03:51.223][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-08-30 16:03:51.224][cch$loadFileContent] Trying to load 1 files from cache: [1]: "7269bbea581f1e243800f8ee4e0f4fdb".
biodb.TRACE[2025-08-30 16:03:51.225][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-08-30 16:03:51.226][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/7269bbea581f1e243800f8ee4e0f4fdb.content".
biodb.DEBUG[2025-08-30 16:03:51.229][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:51.230][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:51.231][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:51.235][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:51.235][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:51.236][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:51.237][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:51.238][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:51.239][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:51.240][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:51.241][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:51.242][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:51.243][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:51.244][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:51.245][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:51.246][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:51.247][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:51.248][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:51.249][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:51.250][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:51.251][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:51.251][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:51.255][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:51.256][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:51.257][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:51.258][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:51.259][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:51.260][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:51.261][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:51.262][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:51.263][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:51.264][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:51.265][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:51.266][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:51.267][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:51.268][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:51.269][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:51.270][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:51.271][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:51.271][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:51.272][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:51.276][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:51.277][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:51.278][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:51.279][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:51.280][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:51.281][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:51.282][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:51.283][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:51.284][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:51.285][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:51.286][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:51.286][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:51.287][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:51.288][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:51.289][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:51.290][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:51.291][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-08-30 16:03:51.293][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:51.294][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:51.295][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:51.298][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:51.299][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:51.300][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:51.301][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:51.302][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:51.303][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:51.304][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:51.305][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:51.306][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:51.307][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:51.308][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:51.309][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:51.310][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:51.311][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:03:51.312][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:03:51.312][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:03:51.313][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:51.314][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:51.315][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:51.316][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:51.317][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:51.318][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:51.319][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:51.320][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:51.321][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:51.322][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:51.323][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:51.324][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:51.325][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:51.326][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:51.327][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:51.327][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-30 16:03:51.328][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:51.329][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:51.330][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:51.331][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:51.332][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:51.333][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:51.334][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:51.335][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:51.336][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:51.337][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:51.338][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:51.339][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:51.340][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4781].
biodb.DEBUG[2025-08-30 16:03:51.341][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:51.342][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:51.343][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:51.347][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:51.348][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:51.349][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:51.350][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:51.351][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:51.352][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:51.353][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:51.354][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:51.354][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:51.355][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:51.356][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:51.357][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:51.358][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:51.359][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:03:51.360][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:03:51.361][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:03:51.362][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:51.363][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:51.364][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:51.365][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:51.366][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:51.367][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:51.368][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:51.369][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:51.370][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:51.371][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:51.371][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:51.372][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:51.373][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:51.374][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:51.375][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:51.376][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-30 16:03:51.377][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:51.378][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:51.379][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:51.380][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:51.381][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:51.382][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:51.383][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:51.384][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:51.385][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:51.386][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:51.387][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:51.388][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:51.389][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [91601].
biodb.DEBUG[2025-08-30 16:03:51.390][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:51.391][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:51.392][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:51.396][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:51.397][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:51.398][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:51.398][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:51.400][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:51.406][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:51.407][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:51.408][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:51.409][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:51.411][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:51.411][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:51.412][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:51.413][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:51.414][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:03:51.415][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:03:51.416][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:03:51.417][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:51.418][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:51.419][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:51.421][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:51.422][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:51.423][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:51.424][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:51.425][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:51.426][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:51.427][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:51.428][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:51.429][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:51.430][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:51.431][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:51.432][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:51.433][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-30 16:03:51.434][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:51.435][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:51.435][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:51.436][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:51.437][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:51.438][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:51.439][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:51.440][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:51.441][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:51.442][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:51.443][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:51.444][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:51.445][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [95147].
biodb.DEBUG[2025-08-30 16:03:51.446][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-08-30 16:03:51.447][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2025-08-30 16:03:51.449][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:51.450][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:51.451][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:51.455][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:51.456][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:51.456][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:51.457][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:03:51.460][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.17*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-08-30 16:03:51.463][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-08-30 16:03:51.464][cch$loadFileContent] Trying to load 1 files from cache: [1]: "acfa4b558978abf12409c2b56e678d03".
biodb.TRACE[2025-08-30 16:03:51.465][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-08-30 16:03:51.466][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/acfa4b558978abf12409c2b56e678d03.content".
biodb.DEBUG[2025-08-30 16:03:51.469][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:51.470][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:51.471][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:51.475][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:51.476][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:51.477][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:51.477][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:51.478][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:51.479][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:51.480][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:51.481][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:51.482][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:51.483][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:51.484][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:51.485][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:51.486][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:51.487][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:51.488][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:51.489][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:51.490][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:51.491][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:51.492][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:51.496][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:51.497][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:51.498][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:51.499][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:51.500][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:51.501][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:51.502][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:51.503][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:51.504][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:51.505][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:51.506][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:51.507][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:51.508][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:51.509][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:51.510][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:51.510][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:51.512][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:51.512][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:51.513][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:51.518][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:51.519][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:51.519][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:51.520][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:51.521][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:51.523][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:51.523][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:51.524][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:51.525][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:51.526][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:51.527][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:51.528][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:51.529][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:51.530][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:51.531][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:51.532][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:51.533][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-08-30 16:03:51.535][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:51.536][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:51.536][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:51.540][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:51.541][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:51.542][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:51.543][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:51.544][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:51.545][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:51.546][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:51.547][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:51.548][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:51.549][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:51.550][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:51.551][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:51.552][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:51.553][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:03:51.554][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:03:51.555][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:03:51.556][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:51.556][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:51.557][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:51.558][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:51.559][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:51.560][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:51.561][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:51.562][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:51.563][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:51.564][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:51.565][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:51.566][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:51.567][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:51.568][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:51.569][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:51.570][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-30 16:03:51.571][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:51.572][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:51.573][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:51.573][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:51.574][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:51.575][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:51.576][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:51.577][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:51.578][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:51.579][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:51.580][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:51.581][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:51.582][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [636].
biodb.DEBUG[2025-08-30 16:03:51.583][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:51.584][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:51.585][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:51.589][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:51.590][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:51.591][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:51.592][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:51.593][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:51.594][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:51.595][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:51.596][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:51.597][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:51.598][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:51.599][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:51.600][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:51.600][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:51.601][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:03:51.602][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:03:51.603][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:03:51.604][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:51.605][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:51.606][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:51.607][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:51.608][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:51.609][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:51.610][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:51.611][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:51.612][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:51.613][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:51.614][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:51.614][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:51.615][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:51.616][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:51.617][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:51.618][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-30 16:03:51.619][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:51.620][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:51.621][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:51.622][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:51.623][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:51.624][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:51.625][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:51.626][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:51.627][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:51.628][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:51.629][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:51.630][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:51.631][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [64199].
biodb.DEBUG[2025-08-30 16:03:51.632][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:51.633][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:51.634][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:51.638][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:51.639][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:51.639][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:51.640][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:51.641][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:51.642][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:51.643][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:51.644][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:51.645][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:51.646][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:51.647][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:51.648][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:51.649][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:51.650][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:03:51.651][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:03:51.652][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:03:51.653][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:51.654][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:51.655][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:51.655][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:51.656][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:51.657][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:51.658][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:51.659][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:51.660][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:51.661][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:51.662][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:51.663][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:51.664][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:51.665][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:51.666][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:51.667][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-30 16:03:51.668][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:51.669][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:51.670][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:51.670][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:51.671][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:51.672][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:51.673][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:51.674][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:51.675][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:51.676][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:51.677][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:51.678][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:51.679][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [65648].
biodb.DEBUG[2025-08-30 16:03:51.680][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-08-30 16:03:51.681][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2025-08-30 16:03:51.698][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:51.699][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:51.700][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:51.703][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:51.704][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:51.705][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:51.706][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:03:51.709][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.3*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-08-30 16:03:51.712][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-08-30 16:03:51.712][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-08-30 16:03:51.714][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.3%2A&searchCategory=MONOISOTOPIC%20MASS&maximumResults=0&starsCategory=ALL".
biodb.TRACE[2025-08-30 16:03:52.288][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.3%2A&searchCategory=MONOISOTOPIC%20MASS&maximumResults=0&starsCategory=ALL).
biodb.DEBUG[2025-08-30 16:03:52.881][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2025-08-30 16:03:52.886][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/26eec570aadd234892b573eb0777bd78.content"
biodb.TRACE[2025-08-30 16:03:52.911][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/26eec570aadd234892b573eb0777bd78.request"
biodb.DEBUG[2025-08-30 16:03:52.920][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:52.922][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:52.924][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:52.932][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:52.933][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:52.935][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:52.937][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:52.938][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:52.940][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:52.942][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:52.943][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:52.944][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:52.946][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:52.947][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:52.948][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:52.950][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:52.951][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:52.952][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:52.954][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:52.955][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:52.956][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:52.957][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:52.962][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:52.963][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:52.964][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:52.965][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:52.966][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:52.967][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:52.968][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:52.969][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:52.970][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:52.971][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:52.972][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:52.973][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:52.974][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:52.975][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:52.976][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:52.977][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:52.978][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:52.978][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:52.979][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:52.983][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:52.984][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:52.985][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:52.986][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:03:52.987][private$loadEntries] Creating entries from ids [1]: "17813".
biodb.DEBUG[2025-08-30 16:03:52.988][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-08-30 16:03:52.989][cch$loadFileContent] Trying to load 1 files from cache: [1]: "17813".
biodb.TRACE[2025-08-30 16:03:52.990][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-08-30 16:03:52.991][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-08-30 16:03:52.992][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-30 16:03:52.993][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-08-30 16:03:52.994][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-08-30 16:03:52.995][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-08-30 16:03:52.997][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:52.998][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:52.999][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:53.003][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:53.004][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:53.005][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:53.006][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:03:53.007][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=17813".
biodb.DEBUG[2025-08-30 16:03:53.009][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-08-30 16:03:53.010][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-08-30 16:03:53.011][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=17813".
biodb.TRACE[2025-08-30 16:03:53.358][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=17813).
biodb.DEBUG[2025-08-30 16:03:53.708][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-08-30 16:03:53.712][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/62f7e1534a05c51cc1431eff021df0bd.content"
biodb.TRACE[2025-08-30 16:03:53.719][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/62f7e1534a05c51cc1431eff021df0bd.request"
biodb.TRACE[2025-08-30 16:03:53.725][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/17813.xml"
biodb.DEBUG[2025-08-30 16:03:53.728][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-08-30 16:03:53.731][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-30 16:03:53.733][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-30 16:03:53.737][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:53.739][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:53.741][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:53.751][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:53.752][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:53.754][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:53.756][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:53.760][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:53.761][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:53.763][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:53.765][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:53.766][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:53.768][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:53.769][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:53.771][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:53.772][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:03:53.774][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:03:53.775][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:53.776][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:53.778][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:03:53.779][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:03:53.781][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:53.782][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:53.783][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:03:53.784][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:03:53.785][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:53.787][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:53.788][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:03:53.789][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:03:53.790][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:53.791][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:53.793][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:03:53.794][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:03:53.795][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:53.796][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:53.797][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:03:53.798][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:03:53.799][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:53.800][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:53.801][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:03:53.802][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:03:53.803][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:53.804][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:53.805][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:03:53.806][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:03:53.807][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:53.808][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:53.809][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:03:53.810][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:03:53.811][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:53.811][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:53.813][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:03:53.814][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:03:53.814][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:53.815][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:53.816][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:03:53.817][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:53.818][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:53.819][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:53.820][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:03:53.821][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:53.822][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:53.823][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:53.824][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:53.825][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:53.826][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:53.827][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:53.828][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:53.829][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:53.830][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:53.831][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:53.832][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:03:53.833][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:03:53.834][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:53.835][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:53.836][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:03:53.837][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:03:53.838][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:53.839][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:53.840][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:03:53.841][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:03:53.842][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:53.843][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:53.844][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:03:53.845][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:03:53.846][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:53.847][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:53.848][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:03:53.849][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:03:53.850][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:53.851][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:53.852][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:03:53.853][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:03:53.854][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:53.855][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:53.856][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:53.857][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:53.858][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:53.859][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:53.860][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:53.861][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:53.861][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:53.862][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:53.863][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:53.864][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:53.865][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:53.866][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:53.867][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:53.868][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:53.869][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:53.870][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:53.871][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:53.872][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:53.873][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:53.874][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:53.875][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:53.876][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:53.877][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:53.877][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:53.878][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:53.879][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:53.880][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:53.881][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:53.882][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:53.883][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:53.884][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:53.885][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:53.886][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:53.887][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:53.888][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:53.889][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:53.890][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:53.891][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:53.892][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:53.893][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:53.894][self$createEntryFromContent] Accession numbers: 17813.
biodb.TRACE[2025-08-30 16:03:53.895][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:53.896][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:53.897][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:53.898][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:53.898][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:53.899][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:53.900][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:53.901][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:53.902][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:53.903][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:53.904][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:53.905][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:53.906][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:53.907][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:53.908][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:53.912][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:53.913][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:53.914][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:53.915][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:03:53.916][private$loadEntries] Creating entries from ids [1]: "30109".
biodb.DEBUG[2025-08-30 16:03:53.917][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-08-30 16:03:53.918][cch$loadFileContent] Trying to load 1 files from cache: [1]: "30109".
biodb.TRACE[2025-08-30 16:03:53.919][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-08-30 16:03:53.920][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-08-30 16:03:53.921][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-30 16:03:53.922][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-08-30 16:03:53.923][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-08-30 16:03:53.924][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-08-30 16:03:53.927][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:53.928][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:53.928][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:53.933][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:53.933][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:53.934][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:53.935][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:03:53.936][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=30109".
biodb.DEBUG[2025-08-30 16:03:53.939][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-08-30 16:03:53.940][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-08-30 16:03:53.941][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=30109".
biodb.TRACE[2025-08-30 16:03:54.285][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=30109).
biodb.DEBUG[2025-08-30 16:03:54.628][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-08-30 16:03:54.632][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/8ed09c4c418a18a426e08dad5ae6a3f9.content"
biodb.TRACE[2025-08-30 16:03:54.640][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/8ed09c4c418a18a426e08dad5ae6a3f9.request"
biodb.TRACE[2025-08-30 16:03:54.645][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/30109.xml"
biodb.DEBUG[2025-08-30 16:03:54.648][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-08-30 16:03:54.651][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-30 16:03:54.653][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-30 16:03:54.657][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:54.659][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:54.661][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:54.671][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:54.673][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:54.674][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:54.676][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:54.680][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:54.682][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:54.683][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:54.685][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:54.687][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:54.688][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:54.690][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:54.691][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:54.693][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:03:54.694][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:03:54.710][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:54.711][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:54.712][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:03:54.714][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:03:54.715][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:54.716][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:54.717][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:03:54.718][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:03:54.719][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:54.720][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:54.721][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:03:54.722][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:03:54.723][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:54.724][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:54.725][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:03:54.726][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:03:54.727][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:54.728][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:54.729][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:03:54.730][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:03:54.731][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:54.732][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:54.733][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:03:54.734][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:03:54.734][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:54.735][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:54.736][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:03:54.737][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:03:54.738][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:54.739][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:54.740][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:03:54.741][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:03:54.742][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:54.743][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:54.744][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:03:54.745][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:03:54.746][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:54.747][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:54.748][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:03:54.749][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:54.750][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:54.751][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:54.752][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:03:54.753][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:54.754][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:54.755][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:54.756][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:54.757][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:54.757][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:54.758][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:54.759][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:54.760][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:54.761][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:54.762][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:54.763][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:03:54.764][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:03:54.765][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:54.766][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:54.767][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:03:54.768][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:03:54.769][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:54.770][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:54.771][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:03:54.772][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:03:54.773][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:54.774][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:54.775][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:03:54.776][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:03:54.777][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:54.778][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:54.779][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:03:54.780][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:03:54.781][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:54.782][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:54.783][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:03:54.784][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:03:54.785][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:54.785][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:54.787][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:54.788][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:54.788][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:54.789][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:54.790][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:54.791][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:54.792][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:54.793][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:54.794][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:54.795][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:54.796][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:54.797][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:54.798][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:54.799][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:54.800][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:54.801][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:54.802][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:54.803][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:54.804][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:54.804][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:54.805][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:54.806][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:54.807][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:54.808][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:54.809][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:54.810][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:54.811][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:54.812][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:54.813][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:54.814][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:54.815][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:54.816][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:54.817][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:54.818][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:54.819][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:54.820][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:54.821][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:54.822][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:54.823][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:54.824][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:54.825][self$createEntryFromContent] Accession numbers: 30109.
biodb.TRACE[2025-08-30 16:03:54.826][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:54.827][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:54.828][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:54.829][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:54.830][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:54.831][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:54.831][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:54.832][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:54.833][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:54.834][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:54.835][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:54.836][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:54.837][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:54.838][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:54.839][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:54.843][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:54.844][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:54.845][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:54.846][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:03:54.847][private$loadEntries] Creating entries from ids [1]: "33275".
biodb.DEBUG[2025-08-30 16:03:54.848][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-08-30 16:03:54.849][cch$loadFileContent] Trying to load 1 files from cache: [1]: "33275".
biodb.TRACE[2025-08-30 16:03:54.851][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-08-30 16:03:54.852][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-08-30 16:03:54.853][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-30 16:03:54.854][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-08-30 16:03:54.855][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-08-30 16:03:54.855][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-08-30 16:03:54.858][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:54.859][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:54.860][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:54.864][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:54.865][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:54.865][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:54.866][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:03:54.867][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=33275".
biodb.DEBUG[2025-08-30 16:03:54.870][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-08-30 16:03:54.871][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-08-30 16:03:54.872][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=33275".
biodb.TRACE[2025-08-30 16:03:55.220][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=33275).
biodb.DEBUG[2025-08-30 16:03:55.568][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-08-30 16:03:55.572][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/e7b5440dd739854267ce8eafb6ea36b1.content"
biodb.TRACE[2025-08-30 16:03:55.579][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/e7b5440dd739854267ce8eafb6ea36b1.request"
biodb.TRACE[2025-08-30 16:03:55.585][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/33275.xml"
biodb.DEBUG[2025-08-30 16:03:55.588][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-08-30 16:03:55.590][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-30 16:03:55.593][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-30 16:03:55.597][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:55.599][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:55.601][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:55.610][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:55.612][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:55.614][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:55.615][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:55.619][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:55.621][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:55.623][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:55.624][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:55.626][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:55.628][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:55.629][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:55.631][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:55.632][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:03:55.634][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:03:55.635][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:55.636][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:55.638][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:03:55.639][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:03:55.640][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:55.642][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:55.643][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:03:55.644][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:03:55.645][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:55.646][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:55.648][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:03:55.649][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:03:55.650][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:55.651][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:55.652][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:03:55.653][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:03:55.654][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:55.655][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:55.656][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:03:55.657][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:03:55.658][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:55.659][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:55.660][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:03:55.661][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:03:55.662][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:55.663][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:55.664][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:03:55.665][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:03:55.666][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:55.667][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:55.668][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:03:55.669][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:03:55.670][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:55.671][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:55.672][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:03:55.673][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:03:55.674][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:55.675][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:55.676][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:03:55.677][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:55.678][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:55.679][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:55.680][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:03:55.681][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:55.682][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:55.683][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:55.684][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:55.685][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:55.686][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:55.687][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:55.688][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:55.689][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:55.690][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:55.691][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:55.692][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:03:55.693][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:03:55.694][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:55.694][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:55.696][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:03:55.697][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:03:55.698][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:55.699][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:55.700][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:03:55.701][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:03:55.701][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:55.702][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:55.703][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:03:55.705][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:03:55.705][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:55.706][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:55.707][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:03:55.708][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:03:55.709][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:55.710][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:55.711][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:03:55.712][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:03:55.713][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:55.714][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:55.715][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:55.716][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:55.717][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:55.718][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:55.719][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:55.720][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:55.721][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:55.722][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:55.723][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:55.724][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:55.725][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:55.726][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:55.726][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:55.727][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:55.728][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:55.729][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:55.730][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:55.731][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:55.732][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:55.733][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:55.734][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:55.735][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:55.736][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:55.737][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:55.738][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:55.739][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:55.740][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:55.741][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:55.742][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:55.743][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:55.744][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:55.745][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:55.746][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:55.747][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:55.747][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:55.748][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:55.749][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:55.750][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:55.751][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:55.752][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:55.753][self$createEntryFromContent] Accession numbers: 33275.
biodb.TRACE[2025-08-30 16:03:55.763][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:55.765][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:55.766][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:55.767][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:55.768][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:55.769][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:55.770][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:55.771][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:55.772][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:55.773][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:55.774][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:55.775][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:55.776][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:55.776][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:55.777][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:55.781][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:55.782][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:55.783][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:55.784][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:03:55.785][private$loadEntries] Creating entries from ids [1]: "33277".
biodb.DEBUG[2025-08-30 16:03:55.786][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-08-30 16:03:55.787][cch$loadFileContent] Trying to load 1 files from cache: [1]: "33277".
biodb.TRACE[2025-08-30 16:03:55.789][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-08-30 16:03:55.790][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-08-30 16:03:55.791][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-30 16:03:55.792][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-08-30 16:03:55.793][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-08-30 16:03:55.793][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-08-30 16:03:55.796][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:55.797][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:55.798][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:55.802][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:55.802][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:55.803][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:55.804][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:03:55.805][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=33277".
biodb.DEBUG[2025-08-30 16:03:55.808][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-08-30 16:03:55.809][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-08-30 16:03:55.810][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=33277".
biodb.TRACE[2025-08-30 16:03:56.151][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=33277).
biodb.DEBUG[2025-08-30 16:03:56.502][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-08-30 16:03:56.507][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/9e077bb25f478950bf1d29f1e643c2aa.content"
biodb.TRACE[2025-08-30 16:03:56.514][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/9e077bb25f478950bf1d29f1e643c2aa.request"
biodb.TRACE[2025-08-30 16:03:56.520][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/33277.xml"
biodb.DEBUG[2025-08-30 16:03:56.523][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-08-30 16:03:56.525][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-30 16:03:56.528][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-30 16:03:56.532][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:56.534][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:56.536][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:56.546][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:56.548][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:56.549][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:56.551][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:56.555][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:56.557][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:56.558][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:56.560][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:56.562][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:56.564][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:56.565][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:56.566][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:56.568][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:03:56.569][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:03:56.571][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:56.572][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:56.574][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:03:56.575][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:03:56.576][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:56.577][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:56.579][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:03:56.580][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:03:56.581][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:56.582][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:56.584][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:03:56.585][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:03:56.586][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:56.587][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:56.588][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:03:56.589][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:03:56.590][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:56.591][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:56.592][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:03:56.593][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:03:56.594][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:56.595][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:56.596][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:03:56.598][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:03:56.598][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:56.599][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:56.601][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:03:56.602][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:03:56.602][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:56.603][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:56.605][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:03:56.606][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:03:56.606][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:56.607][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:56.609][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:03:56.610][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:03:56.611][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:56.612][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:56.613][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:03:56.614][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:56.615][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:56.616][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:56.617][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:03:56.618][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:56.619][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:56.620][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:56.621][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:56.622][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:56.623][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:56.624][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:56.625][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:56.626][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:56.627][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:56.628][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:56.629][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:03:56.630][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:03:56.631][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:56.632][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:56.633][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:03:56.634][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:03:56.635][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:56.636][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:56.637][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:03:56.638][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:03:56.639][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:56.640][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:56.641][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:03:56.642][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:03:56.643][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:56.644][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:56.645][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:03:56.646][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:03:56.647][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:56.648][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:56.649][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:03:56.650][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:03:56.651][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:56.652][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:56.653][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:56.654][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:56.655][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:56.656][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:56.657][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:56.658][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:56.659][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:56.660][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:56.661][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:56.662][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:56.663][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:56.664][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:56.665][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:56.666][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:56.667][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:56.668][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:56.668][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:56.670][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:56.670][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:56.671][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:56.672][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:56.673][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:56.674][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:56.675][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:56.676][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:56.677][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:56.678][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:56.679][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:56.680][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:56.681][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:56.682][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:56.683][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:56.684][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:56.685][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:56.686][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:56.687][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:56.688][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:56.689][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:56.690][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:56.691][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:56.692][self$createEntryFromContent] Accession numbers: 33277.
biodb.TRACE[2025-08-30 16:03:56.693][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:56.694][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:56.695][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:56.695][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:56.696][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:56.697][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:56.698][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:56.699][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:56.700][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:56.701][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:56.702][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:56.703][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:56.704][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:56.705][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:56.706][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:56.710][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:56.711][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:56.712][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:56.713][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:03:56.714][private$loadEntries] Creating entries from ids [1]: "52421".
biodb.DEBUG[2025-08-30 16:03:56.715][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-08-30 16:03:56.716][cch$loadFileContent] Trying to load 1 files from cache: [1]: "52421".
biodb.TRACE[2025-08-30 16:03:56.718][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-08-30 16:03:56.719][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-08-30 16:03:56.720][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-30 16:03:56.721][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-08-30 16:03:56.722][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-08-30 16:03:56.723][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-08-30 16:03:56.725][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:56.726][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:56.727][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:56.731][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:56.732][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:56.733][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:56.734][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:03:56.735][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=52421".
biodb.DEBUG[2025-08-30 16:03:56.737][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-08-30 16:03:56.738][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-08-30 16:03:56.740][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=52421".
biodb.TRACE[2025-08-30 16:03:57.083][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=52421).
biodb.DEBUG[2025-08-30 16:03:57.425][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-08-30 16:03:57.430][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/66d999f05cd47f00d9f023cd227b9481.content"
biodb.TRACE[2025-08-30 16:03:57.437][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/66d999f05cd47f00d9f023cd227b9481.request"
biodb.TRACE[2025-08-30 16:03:57.443][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/52421.xml"
biodb.DEBUG[2025-08-30 16:03:57.446][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-08-30 16:03:57.448][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-30 16:03:57.451][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-30 16:03:57.455][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:57.457][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:57.459][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:57.468][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:57.470][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:57.472][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:57.473][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:57.477][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:57.479][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:57.481][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:57.482][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:57.484][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:57.486][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:57.487][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:57.488][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:57.490][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:03:57.491][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:03:57.493][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:57.494][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:57.496][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:03:57.497][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:03:57.498][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:57.499][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:57.501][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:03:57.502][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:03:57.503][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:57.504][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:57.505][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:03:57.507][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:03:57.508][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:57.509][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:57.510][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:03:57.511][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:03:57.512][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:57.513][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:57.514][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:03:57.515][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:03:57.516][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:57.517][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:57.518][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:03:57.519][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:03:57.520][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:57.521][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:57.522][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:03:57.523][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:03:57.524][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:57.525][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:57.526][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:03:57.527][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:03:57.528][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:57.529][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:57.530][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:03:57.543][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:57.545][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:57.546][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:57.547][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:03:57.548][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:57.549][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:57.550][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:57.551][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:57.552][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:57.553][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:57.554][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:57.555][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:57.556][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:57.557][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:57.558][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:57.559][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:03:57.560][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:03:57.561][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:57.562][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:57.563][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:03:57.564][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:03:57.565][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:57.566][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:57.567][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:03:57.568][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:03:57.569][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:57.570][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:57.571][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:03:57.572][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:03:57.573][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:57.574][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:57.575][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:03:57.576][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:03:57.577][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:57.578][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:57.579][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:03:57.580][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:03:57.581][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:57.581][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:57.583][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:57.584][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:57.584][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:57.585][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:57.586][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:57.587][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:57.588][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:57.589][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:57.590][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:57.591][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:57.592][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:57.593][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:57.594][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:57.595][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:57.596][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:57.597][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:57.598][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:57.599][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:57.600][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:57.600][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:57.601][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:57.602][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:57.603][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:57.604][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:57.605][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:57.606][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:57.607][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:57.608][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:57.609][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:57.610][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:57.611][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:57.612][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:57.613][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:57.614][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:57.615][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:57.616][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:57.617][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:57.618][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:57.619][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:57.619][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:57.620][self$createEntryFromContent] Accession numbers: 52421.
biodb.TRACE[2025-08-30 16:03:57.621][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:57.622][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:57.623][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:57.624][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:57.625][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:57.626][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:57.627][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:57.628][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:57.629][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:57.630][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:57.631][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:57.632][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:57.633][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:57.634][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:57.635][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:57.639][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:57.640][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:57.641][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:57.642][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:57.643][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:57.644][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:57.645][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:57.646][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:57.647][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:57.648][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:57.649][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:57.649][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:57.650][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:57.651][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:57.652][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:57.653][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:57.654][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-08-30 16:03:57.656][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:57.657][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:57.658][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:57.662][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:57.663][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:57.664][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:57.664][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:57.666][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:57.667][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:57.668][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:57.668][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:57.669][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:57.670][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:57.671][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:57.672][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:57.673][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:57.674][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:03:57.675][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:03:57.676][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:03:57.677][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:57.678][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:57.679][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:57.680][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:57.681][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:57.682][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:57.683][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:57.684][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:57.685][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:57.686][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:57.687][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:57.687][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:57.689][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:57.689][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:57.690][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:57.691][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-30 16:03:57.692][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:57.693][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:57.694][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:57.695][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:57.696][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:57.697][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:57.698][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:57.699][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:57.700][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:57.701][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:57.702][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:57.703][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:57.704][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4648].
biodb.DEBUG[2025-08-30 16:03:57.705][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:57.706][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:57.707][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:57.711][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:57.712][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:57.713][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:57.714][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:57.715][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:57.716][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:57.717][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:57.718][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:57.719][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:57.720][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:57.721][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:57.721][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:57.722][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:57.723][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:03:57.724][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:03:57.725][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:03:57.726][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:57.727][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:57.728][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:57.729][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:57.730][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:57.731][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:57.732][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:57.733][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:57.734][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:57.735][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:57.736][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:57.737][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:57.738][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:57.739][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:57.739][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:57.740][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-30 16:03:57.741][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:57.742][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:57.743][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:57.744][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:57.745][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:57.746][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:57.747][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:57.748][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:57.749][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:57.750][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:57.751][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:57.752][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:57.753][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-08-30 16:03:57.754][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:57.755][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:57.756][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:57.760][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:57.761][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:57.762][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:57.763][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:57.764][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:57.765][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:57.766][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:57.767][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:57.768][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:57.769][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:57.770][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:57.771][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:57.772][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:57.772][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:03:57.773][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:03:57.774][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:03:57.775][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:57.776][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:57.777][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:57.778][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:57.779][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:57.780][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:57.781][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:57.782][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:57.783][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:57.784][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:57.785][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:57.786][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:57.787][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:57.788][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:57.788][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:57.789][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-30 16:03:57.790][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:57.791][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:57.792][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:57.793][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:57.794][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:57.795][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:57.796][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:57.797][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:57.798][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:57.799][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:57.800][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:57.801][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:57.802][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [62447].
biodb.DEBUG[2025-08-30 16:03:57.803][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-08-30 16:03:57.804][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2025-08-30 16:03:57.806][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:57.807][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:57.808][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:57.812][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:57.813][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:57.814][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:57.815][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:03:57.817][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=480.2*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-08-30 16:03:57.820][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-08-30 16:03:57.821][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-08-30 16:03:57.823][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=480.2%2A&searchCategory=MONOISOTOPIC%20MASS&maximumResults=0&starsCategory=ALL".
biodb.TRACE[2025-08-30 16:03:58.161][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=480.2%2A&searchCategory=MONOISOTOPIC%20MASS&maximumResults=0&starsCategory=ALL).
biodb.DEBUG[2025-08-30 16:03:58.832][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2025-08-30 16:03:58.837][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/20c224089a82bbffabd2e7dbc67cfae3.content"
biodb.TRACE[2025-08-30 16:03:58.845][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/20c224089a82bbffabd2e7dbc67cfae3.request"
biodb.DEBUG[2025-08-30 16:03:58.859][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:58.862][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:58.864][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:58.873][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:58.875][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:58.877][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:58.878][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:58.880][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:58.882][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:58.884][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:58.885][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:58.887][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:58.889][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:58.890][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:58.892][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:58.893][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:58.895][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:58.907][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:58.908][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:58.910][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:58.911][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:58.912][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:58.916][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:58.917][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:58.918][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:58.919][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:58.920][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:58.921][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:58.922][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:58.923][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:58.924][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:58.925][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:58.926][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:58.927][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:58.928][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:58.929][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:58.930][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:58.931][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:58.932][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:58.933][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:58.933][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:58.937][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:58.938][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:58.939][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:58.940][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:03:58.941][private$loadEntries] Creating entries from ids [1]: "65567".
biodb.DEBUG[2025-08-30 16:03:58.942][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-08-30 16:03:58.943][cch$loadFileContent] Trying to load 1 files from cache: [1]: "65567".
biodb.TRACE[2025-08-30 16:03:58.944][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-08-30 16:03:58.945][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-08-30 16:03:58.947][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-30 16:03:58.947][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-08-30 16:03:58.948][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-08-30 16:03:58.949][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-08-30 16:03:58.952][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:58.953][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:58.953][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:58.957][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:58.958][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:58.959][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:58.960][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:03:58.961][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=65567".
biodb.DEBUG[2025-08-30 16:03:58.963][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-08-30 16:03:58.964][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-08-30 16:03:58.966][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=65567".
biodb.TRACE[2025-08-30 16:03:59.310][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=65567).
biodb.DEBUG[2025-08-30 16:03:59.656][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-08-30 16:03:59.661][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/7f0d7a30f02eb1e897d8c17a3958aa76.content"
biodb.TRACE[2025-08-30 16:03:59.668][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/7f0d7a30f02eb1e897d8c17a3958aa76.request"
biodb.TRACE[2025-08-30 16:03:59.673][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/65567.xml"
biodb.DEBUG[2025-08-30 16:03:59.676][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-08-30 16:03:59.679][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-30 16:03:59.682][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-30 16:03:59.685][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:59.687][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:59.689][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:59.699][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:59.701][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:59.703][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:59.704][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:59.708][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:59.710][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:59.711][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:59.713][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:59.715][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:59.717][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:59.718][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:59.719][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:59.721][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:03:59.722][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:03:59.724][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:59.725][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:59.727][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:03:59.728][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:03:59.729][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:59.730][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:59.732][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:03:59.733][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:03:59.734][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:59.735][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:59.736][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:03:59.738][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:03:59.739][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:59.740][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:59.741][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:03:59.742][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:03:59.743][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:59.744][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:59.745][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:03:59.746][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:03:59.747][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:59.748][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:59.749][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:03:59.750][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:03:59.751][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:59.752][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:59.753][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:03:59.754][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:03:59.755][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:59.756][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:59.757][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:03:59.758][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:03:59.759][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:59.760][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:59.761][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:03:59.762][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:59.763][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:59.764][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:59.765][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:03:59.766][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:59.767][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:59.768][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:59.769][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:59.770][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:59.771][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:59.772][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:59.773][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:59.774][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:59.775][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:59.776][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:59.777][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:03:59.778][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:03:59.779][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:59.780][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:59.781][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:03:59.782][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:03:59.783][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:59.784][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:59.785][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:03:59.786][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:03:59.787][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:59.788][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:59.789][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:03:59.790][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:03:59.791][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:59.792][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:59.793][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:03:59.794][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:03:59.795][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:59.795][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:59.797][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:03:59.798][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:03:59.799][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:59.799][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:59.801][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:59.802][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:59.802][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:59.803][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:59.804][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:59.805][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:59.806][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:59.807][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:59.808][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:59.809][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:59.810][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:59.811][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:59.812][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:59.813][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:59.814][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:59.815][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:59.816][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:59.817][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:59.818][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:59.819][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:59.819][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:59.820][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:59.821][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:59.822][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:59.823][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:59.824][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:59.825][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:59.826][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:59.827][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:59.828][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:59.829][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:59.830][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:59.831][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:59.832][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:59.833][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:59.834][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:59.835][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:59.836][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:59.837][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:59.838][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:59.839][self$createEntryFromContent] Accession numbers: 65567.
biodb.TRACE[2025-08-30 16:03:59.840][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:59.841][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:59.841][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:59.842][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:59.843][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:59.844][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:59.845][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:59.846][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:59.847][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:59.848][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:59.849][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:59.850][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:59.851][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:59.852][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:59.853][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:59.857][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:59.858][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:59.859][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:59.860][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:03:59.861][private$loadEntries] Creating entries from ids [1]: "65576".
biodb.DEBUG[2025-08-30 16:03:59.862][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-08-30 16:03:59.863][cch$loadFileContent] Trying to load 1 files from cache: [1]: "65576".
biodb.TRACE[2025-08-30 16:03:59.864][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-08-30 16:03:59.865][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-08-30 16:03:59.866][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-30 16:03:59.867][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-08-30 16:03:59.868][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-08-30 16:03:59.869][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-08-30 16:03:59.872][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:59.873][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:59.873][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:59.877][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:59.878][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:59.879][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:59.880][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:03:59.881][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=65576".
biodb.DEBUG[2025-08-30 16:03:59.884][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-08-30 16:03:59.885][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-08-30 16:03:59.886][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=65576".
biodb.TRACE[2025-08-30 16:04:00.227][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=65576).
biodb.DEBUG[2025-08-30 16:04:00.571][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-08-30 16:04:00.575][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/df387492c1d7c1e81f35830307d5d903.content"
biodb.TRACE[2025-08-30 16:04:00.583][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/df387492c1d7c1e81f35830307d5d903.request"
biodb.TRACE[2025-08-30 16:04:00.588][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/65576.xml"
biodb.DEBUG[2025-08-30 16:04:00.591][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-08-30 16:04:00.594][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-30 16:04:00.597][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-30 16:04:00.600][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:00.602][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:00.605][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:00.614][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:00.616][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:00.618][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:00.619][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:00.623][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:00.625][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:00.627][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:00.628][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:00.630][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:00.632][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:00.633][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:00.635][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:00.636][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:00.638][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:00.639][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:00.640][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:00.642][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:00.643][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:00.644][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:00.645][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:00.647][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:00.648][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:00.649][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:00.650][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:00.651][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:00.653][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:00.654][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:00.655][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:00.656][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:00.657][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:00.658][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:00.659][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:00.660][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:00.661][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:00.662][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:00.663][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:00.664][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:00.665][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:00.666][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:00.667][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:00.668][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:00.682][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:00.683][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:00.684][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:00.685][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:00.687][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:00.687][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:00.688][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:00.690][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:04:00.691][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:00.692][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:00.692][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:00.694][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:04:00.695][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:00.696][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:00.697][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:00.698][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:00.699][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:00.699][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:00.700][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:00.702][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:00.703][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:00.703][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:00.704][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:00.705][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:00.706][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:00.707][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:00.708][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:00.709][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:00.710][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:00.711][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:00.712][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:00.713][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:04:00.714][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:00.715][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:00.716][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:00.717][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:04:00.718][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:00.719][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:00.720][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:00.721][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:00.722][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:00.723][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:00.724][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:00.725][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:00.726][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:00.727][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:00.728][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:00.729][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:00.730][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:00.731][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:00.732][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:00.733][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:00.734][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:00.735][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:00.736][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:00.737][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:00.738][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:00.739][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:00.739][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:00.740][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:00.742][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:00.742][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:00.743][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:00.744][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:00.745][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:00.746][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:00.747][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:00.748][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:00.749][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:00.750][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:00.751][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:00.752][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:00.753][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:00.754][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:00.755][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:00.756][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:00.757][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:00.758][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:00.759][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:00.760][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:00.761][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:00.762][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:00.763][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:00.764][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:00.765][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:00.765][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:00.766][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:00.767][self$createEntryFromContent] Accession numbers: 65576.
biodb.TRACE[2025-08-30 16:04:00.769][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:00.770][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:00.771][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:00.771][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:00.772][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:00.773][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:00.774][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:00.775][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:00.776][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:00.777][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:00.778][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:00.779][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:00.780][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:00.781][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:00.782][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:00.786][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:00.787][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:00.788][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:00.789][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:04:00.790][private$loadEntries] Creating entries from ids [1]: "66352".
biodb.DEBUG[2025-08-30 16:04:00.791][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-08-30 16:04:00.793][cch$loadFileContent] Trying to load 1 files from cache: [1]: "66352".
biodb.TRACE[2025-08-30 16:04:00.794][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-08-30 16:04:00.795][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-08-30 16:04:00.796][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-30 16:04:00.797][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-08-30 16:04:00.798][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-08-30 16:04:00.799][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-08-30 16:04:00.801][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:00.802][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:00.803][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:00.807][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:00.808][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:00.809][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:00.810][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:04:00.811][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=66352".
biodb.DEBUG[2025-08-30 16:04:00.814][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-08-30 16:04:00.814][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-08-30 16:04:00.816][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=66352".
biodb.TRACE[2025-08-30 16:04:01.157][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=66352).
biodb.DEBUG[2025-08-30 16:04:01.509][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-08-30 16:04:01.513][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/45b0333aa11c1e7eb4af7d2d82f453d6.content"
biodb.TRACE[2025-08-30 16:04:01.520][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/45b0333aa11c1e7eb4af7d2d82f453d6.request"
biodb.TRACE[2025-08-30 16:04:01.526][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/66352.xml"
biodb.DEBUG[2025-08-30 16:04:01.529][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-08-30 16:04:01.531][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-30 16:04:01.534][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-30 16:04:01.538][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:01.540][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:01.542][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:01.551][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:01.553][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:01.555][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:01.556][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:01.560][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:01.562][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:01.564][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:01.565][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:01.567][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:01.569][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:01.570][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:01.572][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:01.573][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:01.575][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:01.576][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:01.577][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:01.579][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:01.580][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:01.581][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:01.583][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:01.584][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:01.585][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:01.586][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:01.587][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:01.589][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:01.590][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:01.591][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:01.592][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:01.593][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:01.594][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:01.595][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:01.596][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:01.597][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:01.598][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:01.599][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:01.600][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:01.601][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:01.602][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:01.603][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:01.604][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:01.605][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:01.606][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:01.607][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:01.608][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:01.609][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:01.610][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:01.611][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:01.612][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:01.613][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:04:01.614][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:01.615][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:01.616][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:01.617][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:04:01.618][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:01.619][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:01.620][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:01.621][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:01.622][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:01.623][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:01.624][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:01.625][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:01.626][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:01.627][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:01.628][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:01.629][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:01.630][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:01.631][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:01.632][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:01.633][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:01.634][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:01.635][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:01.636][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:01.637][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:04:01.638][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:01.639][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:01.640][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:01.641][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:04:01.642][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:01.643][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:01.643][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:01.645][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:01.646][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:01.646][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:01.647][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:01.648][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:01.649][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:01.650][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:01.651][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:01.652][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:01.653][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:01.654][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:01.655][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:01.656][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:01.657][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:01.658][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:01.661][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:01.663][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:01.664][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:01.665][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:01.666][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:01.667][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:01.668][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:01.669][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:01.670][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:01.671][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:01.672][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:01.673][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:01.674][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:01.675][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:01.676][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:01.677][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:01.678][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:01.679][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:01.680][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:01.681][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:01.682][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:01.683][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:01.684][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:01.685][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:01.686][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:01.687][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:01.688][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:01.689][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:01.690][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:01.691][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:01.692][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:01.693][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:01.694][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:01.695][self$createEntryFromContent] Accession numbers: 66352.
biodb.TRACE[2025-08-30 16:04:01.696][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:01.697][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:01.698][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:01.699][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:01.700][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:01.701][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:01.702][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:01.703][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:01.704][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:01.705][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:01.706][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:01.707][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:01.708][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:01.708][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:01.709][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:01.714][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:01.715][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:01.716][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:01.717][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:04:01.718][private$loadEntries] Creating entries from ids [1]: "67567".
biodb.DEBUG[2025-08-30 16:04:01.719][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-08-30 16:04:01.720][cch$loadFileContent] Trying to load 1 files from cache: [1]: "67567".
biodb.TRACE[2025-08-30 16:04:01.721][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-08-30 16:04:01.723][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-08-30 16:04:01.724][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-30 16:04:01.725][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-08-30 16:04:01.726][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-08-30 16:04:01.727][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-08-30 16:04:01.729][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:01.739][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:01.741][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:01.746][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:01.747][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:01.747][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:01.748][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:04:01.749][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=67567".
biodb.DEBUG[2025-08-30 16:04:01.752][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-08-30 16:04:01.753][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-08-30 16:04:01.755][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=67567".
biodb.TRACE[2025-08-30 16:04:02.094][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=67567).
biodb.DEBUG[2025-08-30 16:04:02.435][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-08-30 16:04:02.440][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/ef82f494f4fdd41c2bb93aa0869ad73e.content"
biodb.TRACE[2025-08-30 16:04:02.447][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/ef82f494f4fdd41c2bb93aa0869ad73e.request"
biodb.TRACE[2025-08-30 16:04:02.452][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/67567.xml"
biodb.DEBUG[2025-08-30 16:04:02.455][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-08-30 16:04:02.458][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-30 16:04:02.461][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-30 16:04:02.464][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:02.466][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:02.468][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:02.478][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:02.480][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:02.481][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:02.483][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:02.487][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:02.489][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:02.490][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:02.492][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:02.494][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:02.495][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:02.497][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:02.498][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:02.500][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:02.501][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:02.502][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:02.504][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:02.505][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:02.507][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:02.508][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:02.509][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:02.510][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:02.512][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:02.513][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:02.514][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:02.515][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:02.516][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:02.517][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:02.518][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:02.519][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:02.521][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:02.522][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:02.523][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:02.524][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:02.525][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:02.526][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:02.527][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:02.528][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:02.529][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:02.530][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:02.530][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:02.532][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:02.533][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:02.533][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:02.534][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:02.535][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:02.536][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:02.537][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:02.538][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:02.539][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:04:02.540][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:02.541][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:02.542][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:02.543][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:04:02.544][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:02.545][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:02.546][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:02.547][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:02.548][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:02.549][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:02.550][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:02.551][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:02.552][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:02.553][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:02.554][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:02.555][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:02.556][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:02.557][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:02.558][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:02.559][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:02.560][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:02.561][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:02.562][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:02.563][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:04:02.564][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:02.565][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:02.566][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:02.567][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:04:02.568][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:02.569][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:02.570][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:02.571][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:02.572][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:02.573][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:02.574][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:02.575][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:02.576][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:02.577][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:02.578][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:02.579][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:02.580][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:02.581][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:02.582][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:02.583][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:02.584][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:02.585][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:02.585][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:02.586][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:02.587][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:02.588][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:02.589][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:02.590][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:02.591][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:02.592][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:02.593][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:02.594][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:02.595][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:02.596][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:02.597][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:02.598][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:02.599][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:02.600][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:02.601][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:02.602][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:02.603][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:02.604][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:02.605][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:02.606][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:02.607][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:02.608][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:02.608][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:02.609][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:02.610][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:02.611][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:02.612][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:02.613][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:02.614][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:02.615][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:02.616][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:02.617][self$createEntryFromContent] Accession numbers: 67567.
biodb.TRACE[2025-08-30 16:04:02.618][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:02.619][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:02.620][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:02.621][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:02.622][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:02.623][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:02.624][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:02.625][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:02.626][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:02.627][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:02.628][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:02.629][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:02.630][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:02.631][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:02.632][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:02.636][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:02.637][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:02.637][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:02.638][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:04:02.639][private$loadEntries] Creating entries from ids [1]: "67693".
biodb.DEBUG[2025-08-30 16:04:02.640][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-08-30 16:04:02.642][cch$loadFileContent] Trying to load 1 files from cache: [1]: "67693".
biodb.TRACE[2025-08-30 16:04:02.643][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-08-30 16:04:02.644][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-08-30 16:04:02.645][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-30 16:04:02.646][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-08-30 16:04:02.647][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-08-30 16:04:02.648][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-08-30 16:04:02.650][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:02.651][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:02.652][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:02.656][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:02.657][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:02.658][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:02.659][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:04:02.660][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=67693".
biodb.DEBUG[2025-08-30 16:04:02.662][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-08-30 16:04:02.663][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-08-30 16:04:02.664][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=67693".
biodb.TRACE[2025-08-30 16:04:03.006][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=67693).
biodb.DEBUG[2025-08-30 16:04:03.349][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-08-30 16:04:03.353][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/007181120197262f6a39eff57d7aa092.content"
biodb.TRACE[2025-08-30 16:04:03.360][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/007181120197262f6a39eff57d7aa092.request"
biodb.TRACE[2025-08-30 16:04:03.366][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/67693.xml"
biodb.DEBUG[2025-08-30 16:04:03.369][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-08-30 16:04:03.371][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-30 16:04:03.374][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-30 16:04:03.378][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:03.380][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:03.382][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:03.391][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:03.393][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:03.395][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:03.397][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:03.400][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:03.402][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:03.404][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:03.405][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:03.407][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:03.409][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:03.410][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:03.411][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:03.413][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:03.414][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:03.416][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:03.417][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:03.418][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:03.420][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:03.421][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:03.422][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:03.424][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:03.425][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:03.426][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:03.427][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:03.428][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:03.430][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:03.431][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:03.432][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:03.433][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:03.434][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:03.435][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:03.436][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:03.437][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:03.438][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:03.439][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:03.440][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:03.441][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:03.442][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:03.443][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:03.444][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:03.445][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:03.446][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:03.447][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:03.448][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:03.449][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:03.450][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:03.451][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:03.452][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:03.453][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:04:03.454][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:03.455][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:03.456][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:03.457][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:04:03.458][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:03.459][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:03.459][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:03.461][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:03.462][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:03.462][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:03.463][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:03.464][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:03.465][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:03.466][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:03.467][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:03.468][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:03.469][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:03.470][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:03.471][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:03.472][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:03.473][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:03.474][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:03.475][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:03.476][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:04:03.477][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:03.478][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:03.479][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:03.480][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:04:03.481][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:03.482][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:03.483][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:03.484][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:03.485][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:03.486][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:03.487][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:03.488][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:03.500][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:03.502][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:03.503][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:03.505][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:03.506][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:03.507][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:03.508][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:03.509][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:03.510][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:03.510][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:03.511][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:03.512][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:03.513][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:03.514][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:03.515][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:03.516][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:03.517][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:03.518][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:03.519][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:03.520][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:03.521][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:03.522][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:03.523][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:03.524][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:03.525][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:03.525][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:03.526][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:03.527][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:03.528][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:03.529][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:03.530][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:03.531][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:03.532][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:03.533][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:03.534][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:03.535][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:03.536][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:03.537][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:03.538][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:03.539][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:03.540][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:03.540][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:03.541][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:03.542][self$createEntryFromContent] Accession numbers: 67693.
biodb.TRACE[2025-08-30 16:04:03.543][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:03.544][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:03.545][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:03.546][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:03.547][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:03.548][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:03.549][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:03.550][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:03.551][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:03.552][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:03.553][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:03.553][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:03.554][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:03.555][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:03.556][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:03.560][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:03.561][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:03.562][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:03.563][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:04:03.564][private$loadEntries] Creating entries from ids [1]: "67700".
biodb.DEBUG[2025-08-30 16:04:03.565][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-08-30 16:04:03.566][cch$loadFileContent] Trying to load 1 files from cache: [1]: "67700".
biodb.TRACE[2025-08-30 16:04:03.567][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-08-30 16:04:03.568][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-08-30 16:04:03.569][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-30 16:04:03.570][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-08-30 16:04:03.571][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-08-30 16:04:03.572][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-08-30 16:04:03.575][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:03.575][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:03.576][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:03.580][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:03.581][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:03.582][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:03.583][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:04:03.584][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=67700".
biodb.DEBUG[2025-08-30 16:04:03.586][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-08-30 16:04:03.587][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-08-30 16:04:03.589][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=67700".
biodb.TRACE[2025-08-30 16:04:03.931][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=67700).
biodb.DEBUG[2025-08-30 16:04:04.274][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-08-30 16:04:04.278][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/e41afa9432b74fa2b22a0c53e84c091a.content"
biodb.TRACE[2025-08-30 16:04:04.285][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/e41afa9432b74fa2b22a0c53e84c091a.request"
biodb.TRACE[2025-08-30 16:04:04.291][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/67700.xml"
biodb.DEBUG[2025-08-30 16:04:04.294][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-08-30 16:04:04.296][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-30 16:04:04.299][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-30 16:04:04.303][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:04.305][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:04.307][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:04.316][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:04.318][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:04.320][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:04.321][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:04.325][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:04.327][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:04.329][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:04.330][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:04.332][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:04.334][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:04.335][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:04.336][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:04.338][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:04.340][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:04.341][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:04.342][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:04.344][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:04.345][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:04.346][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:04.347][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:04.349][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:04.350][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:04.351][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:04.352][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:04.354][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:04.355][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:04.356][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:04.357][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:04.358][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:04.359][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:04.360][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:04.361][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:04.362][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:04.363][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:04.364][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:04.365][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:04.366][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:04.367][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:04.368][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:04.369][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:04.370][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:04.371][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:04.372][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:04.373][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:04.374][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:04.375][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:04.376][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:04.377][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:04.378][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:04:04.379][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:04.380][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:04.381][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:04.382][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:04:04.383][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:04.384][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:04.385][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:04.386][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:04.387][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:04.388][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:04.389][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:04.390][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:04.391][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:04.392][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:04.393][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:04.394][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:04.395][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:04.396][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:04.396][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:04.398][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:04.399][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:04.400][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:04.401][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:04.402][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:04:04.403][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:04.404][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:04.404][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:04.406][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:04:04.407][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:04.408][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:04.408][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:04.409][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:04.410][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:04.411][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:04.412][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:04.413][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:04.414][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:04.415][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:04.416][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:04.417][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:04.418][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:04.419][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:04.420][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:04.421][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:04.422][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:04.423][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:04.424][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:04.425][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:04.426][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:04.427][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:04.428][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:04.429][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:04.430][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:04.431][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:04.431][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:04.432][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:04.433][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:04.434][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:04.435][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:04.436][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:04.437][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:04.438][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:04.439][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:04.440][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:04.441][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:04.442][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:04.443][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:04.444][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:04.445][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:04.446][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:04.447][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:04.448][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:04.449][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:04.450][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:04.450][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:04.451][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:04.452][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:04.453][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:04.454][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:04.455][self$createEntryFromContent] Accession numbers: 67700.
biodb.TRACE[2025-08-30 16:04:04.456][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:04.457][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:04.458][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:04.459][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:04.460][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:04.461][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:04.462][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:04.463][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:04.464][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:04.465][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:04.466][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:04.467][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:04.467][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:04.468][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:04.469][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:04.473][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:04.474][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:04.475][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:04.476][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:04:04.477][private$loadEntries] Creating entries from ids [1]: "67701".
biodb.DEBUG[2025-08-30 16:04:04.478][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-08-30 16:04:04.479][cch$loadFileContent] Trying to load 1 files from cache: [1]: "67701".
biodb.TRACE[2025-08-30 16:04:04.481][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-08-30 16:04:04.482][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-08-30 16:04:04.483][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-30 16:04:04.484][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-08-30 16:04:04.485][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-08-30 16:04:04.485][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-08-30 16:04:04.488][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:04.489][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:04.490][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:04.494][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:04.494][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:04.495][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:04.496][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:04:04.497][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=67701".
biodb.DEBUG[2025-08-30 16:04:04.500][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-08-30 16:04:04.501][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-08-30 16:04:04.502][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=67701".
biodb.TRACE[2025-08-30 16:04:05.086][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=67701).
biodb.DEBUG[2025-08-30 16:04:05.429][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-08-30 16:04:05.434][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/ca9443fe11bfb8fe207e2797d18dbba3.content"
biodb.TRACE[2025-08-30 16:04:05.441][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/ca9443fe11bfb8fe207e2797d18dbba3.request"
biodb.TRACE[2025-08-30 16:04:05.446][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/67701.xml"
biodb.DEBUG[2025-08-30 16:04:05.449][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-08-30 16:04:05.452][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-30 16:04:05.455][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-30 16:04:05.458][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:05.460][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:05.462][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:05.472][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:05.474][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:05.475][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:05.477][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:05.481][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:05.483][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:05.485][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:05.486][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:05.488][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:05.504][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:05.506][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:05.507][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:05.508][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:05.510][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:05.511][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:05.512][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:05.513][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:05.514][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:05.515][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:05.516][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:05.517][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:05.518][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:05.519][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:05.520][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:05.522][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:05.523][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:05.523][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:05.524][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:05.525][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:05.526][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:05.527][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:05.528][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:05.529][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:05.530][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:05.531][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:05.532][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:05.533][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:05.534][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:05.535][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:05.536][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:05.537][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:05.538][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:05.539][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:05.540][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:05.541][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:05.542][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:05.543][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:05.543][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:05.545][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:04:05.546][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:05.546][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:05.547][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:05.548][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:04:05.549][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:05.550][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:05.551][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:05.552][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:05.553][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:05.554][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:05.555][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:05.556][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:05.557][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:05.558][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:05.559][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:05.560][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:05.561][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:05.562][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:05.563][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:05.564][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:05.565][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:05.566][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:05.567][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:05.568][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:04:05.569][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:05.570][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:05.570][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:05.572][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:04:05.573][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:05.573][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:05.574][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:05.575][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:05.576][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:05.577][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:05.578][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:05.579][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:05.580][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:05.581][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:05.582][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:05.583][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:05.584][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:05.585][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:05.586][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:05.587][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:05.588][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:05.589][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:05.590][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:05.591][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:05.592][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:05.592][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:05.593][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:05.594][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:05.595][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:05.596][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:05.597][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:05.598][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:05.599][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:05.600][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:05.601][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:05.602][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:05.603][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:05.604][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:05.605][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:05.606][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:05.607][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:05.608][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:05.609][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:05.610][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:05.611][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:05.612][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:05.613][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:05.614][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:05.615][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:05.615][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:05.616][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:05.617][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:05.618][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:05.619][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:05.620][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:05.621][self$createEntryFromContent] Accession numbers: 67701.
biodb.TRACE[2025-08-30 16:04:05.622][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:05.623][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:05.624][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:05.625][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:05.626][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:05.627][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:05.628][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:05.629][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:05.630][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:05.631][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:05.632][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:05.633][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:05.634][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:05.635][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:05.635][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:05.640][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:05.641][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:05.641][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:05.642][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:04:05.643][private$loadEntries] Creating entries from ids [1]: "67705".
biodb.DEBUG[2025-08-30 16:04:05.644][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-08-30 16:04:05.646][cch$loadFileContent] Trying to load 1 files from cache: [1]: "67705".
biodb.TRACE[2025-08-30 16:04:05.647][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-08-30 16:04:05.648][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-08-30 16:04:05.649][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-30 16:04:05.650][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-08-30 16:04:05.651][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-08-30 16:04:05.652][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-08-30 16:04:05.654][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:05.655][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:05.656][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:05.660][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:05.661][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:05.662][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:05.663][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:04:05.664][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=67705".
biodb.DEBUG[2025-08-30 16:04:05.667][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-08-30 16:04:05.668][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-08-30 16:04:05.669][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=67705".
biodb.TRACE[2025-08-30 16:04:06.028][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=67705).
biodb.DEBUG[2025-08-30 16:04:06.371][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-08-30 16:04:06.376][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/19583a5be2f48ffe4ea86ed642cbc7df.content"
biodb.TRACE[2025-08-30 16:04:06.383][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/19583a5be2f48ffe4ea86ed642cbc7df.request"
biodb.TRACE[2025-08-30 16:04:06.388][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/67705.xml"
biodb.DEBUG[2025-08-30 16:04:06.391][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-08-30 16:04:06.394][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-30 16:04:06.397][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-30 16:04:06.400][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:06.402][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:06.404][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:06.414][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:06.415][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:06.417][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:06.419][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:06.423][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:06.425][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:06.426][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:06.428][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:06.429][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:06.431][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:06.432][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:06.434][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:06.435][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:06.437][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:06.438][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:06.439][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:06.441][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:06.442][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:06.444][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:06.445][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:06.446][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:06.447][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:06.448][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:06.449][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:06.451][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:06.452][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:06.453][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:06.454][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:06.455][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:06.456][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:06.457][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:06.458][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:06.460][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:06.461][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:06.462][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:06.463][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:06.464][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:06.465][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:06.466][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:06.466][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:06.468][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:06.469][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:06.469][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:06.470][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:06.471][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:06.472][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:06.473][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:06.474][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:06.475][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:04:06.476][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:06.477][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:06.478][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:06.479][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:04:06.480][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:06.481][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:06.482][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:06.483][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:06.484][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:06.485][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:06.486][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:06.487][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:06.488][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:06.489][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:06.490][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:06.491][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:06.492][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:06.493][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:06.494][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:06.495][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:06.496][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:06.497][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:06.498][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:06.499][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:04:06.500][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:06.501][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:06.502][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:06.503][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:04:06.504][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:06.505][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:06.505][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:06.507][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:06.507][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:06.508][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:06.509][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:06.510][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:06.511][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:06.512][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:06.513][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:06.514][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:06.515][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:06.516][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:06.517][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:06.518][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:06.519][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:06.520][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:06.521][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:06.522][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:06.523][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:06.524][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:06.525][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:06.526][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:06.527][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:06.528][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:06.528][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:06.529][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:06.530][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:06.531][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:06.532][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:06.533][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:06.534][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:06.535][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:06.536][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:06.537][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:06.538][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:06.539][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:06.540][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:06.541][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:06.542][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:06.543][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:06.544][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:06.545][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:06.546][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:06.547][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:06.547][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:06.548][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:06.549][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:06.550][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:06.551][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:06.552][self$createEntryFromContent] Accession numbers: 67705.
biodb.TRACE[2025-08-30 16:04:06.562][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:06.564][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:06.565][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:06.566][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:06.567][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:06.568][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:06.569][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:06.570][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:06.571][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:06.572][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:06.573][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:06.574][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:06.575][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:06.575][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:06.576][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:06.580][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:06.581][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:06.582][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:06.583][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:04:06.584][private$loadEntries] Creating entries from ids [1]: "75265".
biodb.DEBUG[2025-08-30 16:04:06.585][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-08-30 16:04:06.586][cch$loadFileContent] Trying to load 1 files from cache: [1]: "75265".
biodb.TRACE[2025-08-30 16:04:06.587][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-08-30 16:04:06.588][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-08-30 16:04:06.589][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-30 16:04:06.590][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-08-30 16:04:06.591][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-08-30 16:04:06.592][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-08-30 16:04:06.595][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:06.595][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:06.596][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:06.600][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:06.601][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:06.602][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:06.603][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:04:06.604][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=75265".
biodb.DEBUG[2025-08-30 16:04:06.606][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-08-30 16:04:06.607][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-08-30 16:04:06.608][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=75265".
biodb.TRACE[2025-08-30 16:04:06.946][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=75265).
biodb.DEBUG[2025-08-30 16:04:07.334][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-08-30 16:04:07.338][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/d89a3a12f8b9f5e8203e72f55b0016ed.content"
biodb.TRACE[2025-08-30 16:04:07.345][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/d89a3a12f8b9f5e8203e72f55b0016ed.request"
biodb.TRACE[2025-08-30 16:04:07.351][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/75265.xml"
biodb.DEBUG[2025-08-30 16:04:07.354][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-08-30 16:04:07.356][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-30 16:04:07.359][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-30 16:04:07.363][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:07.365][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:07.367][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:07.376][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:07.378][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:07.380][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:07.381][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:07.385][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:07.387][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:07.388][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:07.390][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:07.392][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:07.393][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:07.395][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:07.396][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:07.398][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:07.399][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:07.401][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:07.402][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:07.403][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:07.405][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:07.406][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:07.407][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:07.409][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:07.410][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:07.411][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:07.412][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:07.413][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:07.415][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:07.416][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:07.417][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:07.418][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:07.419][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:07.420][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:07.421][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:07.422][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:07.423][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:07.424][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:07.425][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:07.426][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:07.427][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:07.428][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:07.429][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:07.430][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:04:07.431][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:07.432][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:07.433][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:07.434][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:04:07.435][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:07.436][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:07.437][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:07.438][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:07.439][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:07.440][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:07.441][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:07.442][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:07.443][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:07.444][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:07.445][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:07.446][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:07.447][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:07.448][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:07.449][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:07.450][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:07.451][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:07.452][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:07.453][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:07.454][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:04:07.455][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:07.456][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:07.457][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:07.458][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:04:07.459][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:07.460][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:07.461][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:07.462][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:07.463][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:07.464][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:07.464][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:07.466][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:07.467][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:07.468][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:07.468][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:07.470][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:07.471][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:07.471][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:07.472][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:07.473][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:07.474][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:07.475][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:07.476][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:07.477][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:07.478][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:07.479][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:07.480][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:07.481][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:07.482][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:07.483][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:07.484][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:07.485][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:07.486][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:07.487][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:07.488][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:07.488][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:07.489][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:07.490][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:07.491][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:07.492][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:07.493][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:07.494][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:07.495][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:07.496][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:07.497][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:07.498][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:07.499][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:07.500][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:07.501][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:07.502][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:07.503][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:07.504][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:07.505][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:07.506][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:07.507][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:07.507][self$createEntryFromContent] Accession numbers: 75265.
biodb.TRACE[2025-08-30 16:04:07.509][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:07.510][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:07.510][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:07.511][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:07.512][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:07.513][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:07.514][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:07.515][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:07.516][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:07.517][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:07.518][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:07.519][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:07.520][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:07.521][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:07.522][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:07.526][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:07.527][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:07.527][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:07.528][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:04:07.529][private$loadEntries] Creating entries from ids [1]: "77370".
biodb.DEBUG[2025-08-30 16:04:07.530][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-08-30 16:04:07.532][cch$loadFileContent] Trying to load 1 files from cache: [1]: "77370".
biodb.TRACE[2025-08-30 16:04:07.533][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-08-30 16:04:07.534][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-08-30 16:04:07.535][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-30 16:04:07.536][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-08-30 16:04:07.537][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-08-30 16:04:07.538][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-08-30 16:04:07.540][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:07.541][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:07.542][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:07.546][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:07.547][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:07.548][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:07.549][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:04:07.550][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=77370".
biodb.DEBUG[2025-08-30 16:04:07.552][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-08-30 16:04:07.553][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-08-30 16:04:07.554][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=77370".
biodb.TRACE[2025-08-30 16:04:07.895][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=77370).
biodb.DEBUG[2025-08-30 16:04:08.242][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-08-30 16:04:08.246][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/c00fcc12163fc12434466e6319d4b9a8.content"
biodb.TRACE[2025-08-30 16:04:08.253][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/c00fcc12163fc12434466e6319d4b9a8.request"
biodb.TRACE[2025-08-30 16:04:08.259][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/77370.xml"
biodb.DEBUG[2025-08-30 16:04:08.262][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-08-30 16:04:08.264][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-30 16:04:08.267][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-30 16:04:08.271][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:08.273][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:08.275][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:08.284][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:08.286][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:08.288][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:08.290][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:08.293][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:08.295][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:08.297][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:08.298][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:08.300][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:08.302][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:08.303][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:08.305][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:08.306][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:08.308][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:08.309][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:08.310][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:08.312][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:08.313][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:08.314][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:08.315][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:08.317][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:08.318][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:08.319][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:08.320][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:08.321][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:08.323][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:08.324][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:08.325][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:08.326][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:08.327][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:08.328][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:08.329][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:08.330][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:08.331][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:08.332][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:08.333][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:08.334][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:08.335][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:08.336][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:08.337][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:08.338][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:04:08.339][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:08.340][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:08.341][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:08.342][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:04:08.343][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:08.344][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:08.345][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:08.346][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:08.347][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:08.348][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:08.349][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:08.350][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:08.351][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:08.352][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:08.353][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:08.354][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:08.355][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:08.356][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:08.368][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:08.370][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:08.372][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:08.373][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:08.374][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:08.375][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:04:08.376][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:08.377][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:08.378][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:08.379][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:04:08.380][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:08.381][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:08.382][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:08.383][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:08.384][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:08.384][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:08.385][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:08.386][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:08.387][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:08.388][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:08.389][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:08.390][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:08.391][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:08.392][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:08.393][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:08.394][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:08.395][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:08.396][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:08.397][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:08.398][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:08.399][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:08.400][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:08.400][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:08.401][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:08.402][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:08.403][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:08.404][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:08.405][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:08.406][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:08.407][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:08.408][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:08.409][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:08.410][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:08.411][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:08.412][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:08.413][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:08.414][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:08.414][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:08.415][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:08.416][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:08.417][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:08.418][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:08.419][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:08.420][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:08.421][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:08.422][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:08.423][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:08.424][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:08.425][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:08.426][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:08.427][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:08.428][self$createEntryFromContent] Accession numbers: 77370.
biodb.TRACE[2025-08-30 16:04:08.429][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:08.430][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:08.431][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:08.431][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:08.432][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:08.433][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:08.434][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:08.435][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:08.436][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:08.437][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:08.438][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:08.439][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:08.440][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:08.441][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:08.441][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:08.446][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:08.446][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:08.447][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:08.448][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:04:08.449][private$loadEntries] Creating entries from ids [1]: "79074".
biodb.DEBUG[2025-08-30 16:04:08.450][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-08-30 16:04:08.452][cch$loadFileContent] Trying to load 1 files from cache: [1]: "79074".
biodb.TRACE[2025-08-30 16:04:08.453][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-08-30 16:04:08.454][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-08-30 16:04:08.455][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-30 16:04:08.456][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-08-30 16:04:08.457][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-08-30 16:04:08.458][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-08-30 16:04:08.460][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:08.461][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:08.462][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:08.466][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:08.467][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:08.468][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:08.469][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:04:08.470][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=79074".
biodb.DEBUG[2025-08-30 16:04:08.472][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-08-30 16:04:08.473][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-08-30 16:04:08.474][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=79074".
biodb.TRACE[2025-08-30 16:04:08.816][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=79074).
biodb.DEBUG[2025-08-30 16:04:09.162][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-08-30 16:04:09.167][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/9d103521a9057f87b1d7f6dac467847d.content"
biodb.TRACE[2025-08-30 16:04:09.174][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/9d103521a9057f87b1d7f6dac467847d.request"
biodb.TRACE[2025-08-30 16:04:09.179][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/79074.xml"
biodb.DEBUG[2025-08-30 16:04:09.182][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-08-30 16:04:09.185][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-30 16:04:09.188][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-30 16:04:09.191][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:09.193][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:09.195][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:09.205][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:09.207][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:09.208][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:09.210][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:09.214][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:09.216][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:09.217][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:09.219][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:09.221][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:09.223][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:09.224][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:09.225][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:09.227][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:09.228][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:09.230][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:09.231][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:09.233][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:09.234][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:09.235][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:09.236][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:09.238][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:09.239][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:09.240][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:09.241][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:09.242][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:09.244][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:09.245][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:09.246][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:09.247][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:09.248][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:09.249][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:09.250][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:09.251][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:09.252][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:09.253][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:09.254][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:09.255][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:09.256][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:09.257][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:09.258][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:09.259][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:09.260][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:09.261][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:09.262][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:09.263][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:09.264][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:09.265][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:09.266][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:09.267][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:04:09.268][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:09.269][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:09.270][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:09.271][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:04:09.272][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:09.273][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:09.274][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:09.275][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:09.276][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:09.277][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:09.277][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:09.279][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:09.280][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:09.281][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:09.281][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:09.282][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:09.283][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:09.284][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:09.285][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:09.287][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:09.288][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:09.288][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:09.289][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:09.290][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:04:09.291][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:09.292][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:09.293][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:09.294][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:04:09.295][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:09.296][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:09.297][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:09.298][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:09.299][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:09.300][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:09.301][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:09.302][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:09.303][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:09.304][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:09.305][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:09.306][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:09.307][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:09.308][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:09.309][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:09.310][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:09.311][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:09.312][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:09.313][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:09.314][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:09.315][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:09.315][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:09.316][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:09.317][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:09.318][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:09.319][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:09.320][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:09.321][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:09.322][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:09.323][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:09.324][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:09.325][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:09.326][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:09.327][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:09.328][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:09.329][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:09.330][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:09.331][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:09.331][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:09.333][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:09.334][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:09.334][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:09.335][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:09.336][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:09.337][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:09.338][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:09.339][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:09.340][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:09.341][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:09.342][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:09.343][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:09.344][self$createEntryFromContent] Accession numbers: 79074.
biodb.TRACE[2025-08-30 16:04:09.345][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:09.346][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:09.347][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:09.348][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:09.349][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:09.350][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:09.351][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:09.351][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:09.352][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:09.353][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:09.354][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:09.355][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:09.356][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:09.357][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:09.358][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:09.362][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:09.363][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:09.364][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:09.365][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:04:09.366][private$loadEntries] Creating entries from ids [1]: "79302".
biodb.DEBUG[2025-08-30 16:04:09.367][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-08-30 16:04:09.368][cch$loadFileContent] Trying to load 1 files from cache: [1]: "79302".
biodb.TRACE[2025-08-30 16:04:09.369][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-08-30 16:04:09.370][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-08-30 16:04:09.371][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-30 16:04:09.372][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-08-30 16:04:09.373][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-08-30 16:04:09.374][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-08-30 16:04:09.377][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:09.377][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:09.378][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:09.382][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:09.383][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:09.384][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:09.385][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:04:09.386][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=79302".
biodb.DEBUG[2025-08-30 16:04:09.388][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-08-30 16:04:09.389][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-08-30 16:04:09.391][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=79302".
biodb.TRACE[2025-08-30 16:04:09.733][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=79302).
biodb.DEBUG[2025-08-30 16:04:10.073][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-08-30 16:04:10.077][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/db109891c430ecee6c4d31019e936bb4.content"
biodb.TRACE[2025-08-30 16:04:10.085][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/db109891c430ecee6c4d31019e936bb4.request"
biodb.TRACE[2025-08-30 16:04:10.090][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/79302.xml"
biodb.DEBUG[2025-08-30 16:04:10.115][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-08-30 16:04:10.117][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-30 16:04:10.120][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-30 16:04:10.123][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:10.125][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:10.126][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:10.133][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:10.134][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:10.136][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:10.137][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:10.140][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:10.142][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:10.143][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:10.144][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:10.146][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:10.147][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:10.148][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:10.149][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:10.150][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:10.152][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:10.153][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:10.154][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:10.155][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:10.156][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:10.157][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:10.158][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:10.159][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:10.160][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:10.161][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:10.162][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:10.163][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:10.165][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:10.165][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:10.166][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:10.167][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:10.168][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:10.169][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:10.170][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:10.171][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:10.172][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:10.173][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:10.174][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:10.175][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:10.176][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:10.177][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:10.178][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:10.179][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:10.180][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:10.181][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:10.182][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:10.183][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:10.184][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:10.185][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:10.186][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:10.187][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:04:10.188][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:10.189][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:10.190][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:10.191][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:04:10.192][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:10.193][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:10.193][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:10.194][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:10.195][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:10.196][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:10.197][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:10.198][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:10.199][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:10.200][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:10.201][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:10.202][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:10.203][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:10.204][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:10.205][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:10.206][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:10.207][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:10.208][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:10.209][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:10.210][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:04:10.211][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:10.212][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:10.213][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:10.214][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:04:10.215][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:10.216][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:10.217][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:10.218][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:10.219][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:10.220][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:10.221][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:10.222][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:10.223][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:10.224][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:10.225][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:10.226][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:10.227][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:10.228][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:10.229][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:10.229][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:10.231][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:10.231][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:10.232][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:10.233][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:10.234][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:10.235][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:10.236][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:10.237][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:10.238][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:10.239][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:10.240][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:10.241][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:10.242][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:10.243][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:10.244][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:10.245][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:10.246][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:10.247][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:10.248][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:10.249][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:10.250][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:10.251][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:10.251][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:10.253][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:10.254][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:10.254][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:10.255][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:10.256][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:10.257][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:10.258][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:10.259][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:10.260][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:10.261][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:10.262][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:10.263][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:10.264][self$createEntryFromContent] Accession numbers: 79302.
biodb.TRACE[2025-08-30 16:04:10.265][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:10.266][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:10.267][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:10.268][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:10.269][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:10.270][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:10.271][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:10.272][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:10.273][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:10.274][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:10.275][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:10.275][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:10.276][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:10.277][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:10.278][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:10.282][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:10.283][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:10.284][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:10.285][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:04:10.286][private$loadEntries] Creating entries from ids [1]: "84164".
biodb.DEBUG[2025-08-30 16:04:10.287][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-08-30 16:04:10.288][cch$loadFileContent] Trying to load 1 files from cache: [1]: "84164".
biodb.TRACE[2025-08-30 16:04:10.290][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-08-30 16:04:10.291][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-08-30 16:04:10.292][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-30 16:04:10.293][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-08-30 16:04:10.294][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-08-30 16:04:10.294][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-08-30 16:04:10.297][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:10.298][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:10.299][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:10.303][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:10.303][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:10.304][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:10.305][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:04:10.306][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=84164".
biodb.DEBUG[2025-08-30 16:04:10.309][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-08-30 16:04:10.310][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-08-30 16:04:10.311][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=84164".
biodb.TRACE[2025-08-30 16:04:10.656][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=84164).
biodb.DEBUG[2025-08-30 16:04:10.997][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-08-30 16:04:11.002][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/5878d01d3db7a255abcfdf35c60dd985.content"
biodb.TRACE[2025-08-30 16:04:11.009][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/5878d01d3db7a255abcfdf35c60dd985.request"
biodb.TRACE[2025-08-30 16:04:11.014][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/84164.xml"
biodb.DEBUG[2025-08-30 16:04:11.017][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-08-30 16:04:11.020][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-30 16:04:11.022][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-30 16:04:11.026][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:11.028][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:11.030][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:11.040][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:11.041][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:11.043][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:11.045][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:11.049][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:11.051][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:11.052][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:11.054][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:11.056][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:11.057][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:11.059][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:11.060][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:11.062][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:11.063][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:11.065][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:11.066][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:11.067][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:11.069][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:11.070][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:11.071][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:11.072][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:11.074][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:11.075][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:11.076][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:11.077][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:11.079][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:11.080][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:11.081][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:11.082][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:11.083][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:11.084][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:11.085][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:11.086][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:11.087][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:11.088][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:11.089][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:11.090][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:11.091][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:11.092][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:11.093][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:11.094][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:11.095][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:11.096][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:11.097][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:11.098][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:11.099][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:11.100][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:11.101][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:11.102][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:04:11.103][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:11.104][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:11.105][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:11.106][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:04:11.107][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:11.108][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:11.109][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:11.110][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:11.111][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:11.111][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:11.112][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:11.113][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:11.114][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:11.115][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:11.116][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:11.117][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:11.118][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:11.119][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:11.120][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:11.121][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:11.122][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:11.123][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:11.124][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:11.125][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:04:11.126][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:11.127][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:11.128][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:11.129][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:04:11.130][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:11.131][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:11.132][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:11.133][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:11.134][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:11.135][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:11.136][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:11.137][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:11.138][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:11.139][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:11.140][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:11.141][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:11.142][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:11.143][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:11.144][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:11.145][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:11.146][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:11.147][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:11.147][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:11.148][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:11.149][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:11.150][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:11.151][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:11.152][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:11.153][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:11.154][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:11.155][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:11.156][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:11.157][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:11.158][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:11.159][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:11.160][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:11.170][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:11.171][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:11.172][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:11.174][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:11.175][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:11.176][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:11.176][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:11.178][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:11.179][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:11.180][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:11.180][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:11.181][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:11.182][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:11.183][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:11.184][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:11.185][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:11.186][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:11.187][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:11.188][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:11.189][self$createEntryFromContent] Accession numbers: 84164.
biodb.TRACE[2025-08-30 16:04:11.190][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:11.191][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:11.192][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:11.193][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:11.194][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:11.195][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:11.196][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:11.196][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:11.197][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:11.198][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:11.199][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:11.200][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:11.201][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:11.202][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:11.203][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:11.207][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:11.208][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:11.209][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:11.209][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:04:11.210][private$loadEntries] Creating entries from ids [1]: "132314".
biodb.DEBUG[2025-08-30 16:04:11.211][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-08-30 16:04:11.213][cch$loadFileContent] Trying to load 1 files from cache: [1]: "132314".
biodb.TRACE[2025-08-30 16:04:11.214][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-08-30 16:04:11.215][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-08-30 16:04:11.216][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-30 16:04:11.217][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-08-30 16:04:11.218][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-08-30 16:04:11.219][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-08-30 16:04:11.221][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:11.222][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:11.223][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:11.227][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:11.228][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:11.228][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:11.229][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:04:11.230][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=132314".
biodb.DEBUG[2025-08-30 16:04:11.233][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-08-30 16:04:11.234][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-08-30 16:04:11.235][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=132314".
biodb.TRACE[2025-08-30 16:04:11.575][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=132314).
biodb.DEBUG[2025-08-30 16:04:11.919][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-08-30 16:04:11.922][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/faff8e4827734119a684907f214879a2.content"
biodb.TRACE[2025-08-30 16:04:11.927][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/faff8e4827734119a684907f214879a2.request"
biodb.TRACE[2025-08-30 16:04:11.931][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/132314.xml"
biodb.DEBUG[2025-08-30 16:04:11.933][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-08-30 16:04:11.935][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-30 16:04:11.936][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-30 16:04:11.939][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:11.940][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:11.941][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:11.948][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:11.950][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:11.951][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:11.953][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:11.956][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:11.957][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:11.959][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:11.960][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:11.962][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:11.964][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:11.965][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:11.967][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:11.968][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:11.970][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:11.971][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:11.973][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:11.975][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:11.976][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:11.978][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:11.979][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:11.981][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:11.983][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:11.984][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:11.985][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:11.987][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:11.989][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:11.990][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:11.992][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:11.994][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:11.995][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:11.997][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:11.998][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:12.000][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:12.002][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:12.003][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:12.005][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:12.006][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:12.008][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:12.009][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:12.011][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:12.013][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:12.014][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:12.015][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:12.016][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:12.017][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:12.018][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:12.019][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:12.020][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:12.021][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:04:12.022][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:12.023][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:12.024][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:12.025][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:04:12.026][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:12.027][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:12.028][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:12.029][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:12.030][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:12.031][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:12.032][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:12.033][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:12.034][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:12.035][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:12.036][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:12.037][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:12.038][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:12.039][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:12.039][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:12.041][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:12.042][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:12.043][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:12.044][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:12.045][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:04:12.046][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:12.047][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:12.047][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:12.049][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:04:12.050][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:12.051][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:12.051][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:12.052][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:12.053][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:12.054][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:12.055][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:12.056][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:12.057][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:12.058][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:12.059][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:12.060][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:12.061][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:12.062][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:12.063][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:12.064][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:12.065][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:12.066][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:12.067][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:12.068][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:12.069][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:12.070][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:12.071][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:12.072][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:12.073][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:12.074][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:12.075][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:12.076][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:12.077][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:12.078][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:12.078][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:12.079][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:12.080][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:12.081][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:12.082][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:12.083][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:12.084][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:12.085][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:12.086][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:12.087][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:12.088][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:12.089][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:12.090][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:12.091][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:12.092][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:12.093][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:12.094][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:12.095][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:12.096][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:12.097][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:12.098][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:12.099][self$createEntryFromContent] Accession numbers: 132314.
biodb.TRACE[2025-08-30 16:04:12.100][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:12.101][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:12.102][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:12.102][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:12.103][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:12.104][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:12.105][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:12.106][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:12.107][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:12.108][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:12.109][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:12.110][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:12.111][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:12.112][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:12.113][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:12.117][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:12.118][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:12.119][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:12.120][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:04:12.121][private$loadEntries] Creating entries from ids [1]: "132338".
biodb.DEBUG[2025-08-30 16:04:12.122][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-08-30 16:04:12.123][cch$loadFileContent] Trying to load 1 files from cache: [1]: "132338".
biodb.TRACE[2025-08-30 16:04:12.124][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-08-30 16:04:12.125][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-08-30 16:04:12.126][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-30 16:04:12.127][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-08-30 16:04:12.128][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-08-30 16:04:12.129][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-08-30 16:04:12.132][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:12.133][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:12.133][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:12.137][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:12.138][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:12.139][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:12.140][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:04:12.141][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=132338".
biodb.DEBUG[2025-08-30 16:04:12.144][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-08-30 16:04:12.145][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-08-30 16:04:12.146][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=132338".
biodb.TRACE[2025-08-30 16:04:12.492][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=132338).
biodb.DEBUG[2025-08-30 16:04:12.838][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-08-30 16:04:12.842][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/4ab2b9171a775a690a32a30e73cf2a1c.content"
biodb.TRACE[2025-08-30 16:04:12.849][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/4ab2b9171a775a690a32a30e73cf2a1c.request"
biodb.TRACE[2025-08-30 16:04:12.855][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/132338.xml"
biodb.DEBUG[2025-08-30 16:04:12.858][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-08-30 16:04:12.861][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-30 16:04:12.863][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-30 16:04:12.867][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:12.869][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:12.871][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:12.880][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:12.882][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:12.884][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:12.886][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:12.890][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:12.891][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:12.893][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:12.894][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:12.896][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:12.898][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:12.899][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:12.901][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:12.902][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:12.904][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:12.905][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:12.906][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:12.908][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:12.909][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:12.911][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:12.912][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:12.913][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:12.914][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:12.915][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:12.917][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:12.918][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:12.919][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:12.920][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:12.921][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:12.922][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:12.923][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:12.936][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:12.938][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:12.940][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:12.941][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:12.942][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:12.943][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:12.944][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:12.945][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:12.946][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:12.947][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:12.948][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:12.949][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:12.950][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:12.951][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:12.952][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:12.953][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:12.954][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:12.955][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:12.956][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:04:12.957][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:12.958][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:12.959][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:12.960][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:04:12.961][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:12.962][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:12.963][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:12.964][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:12.965][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:12.966][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:12.967][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:12.968][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:12.969][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:12.970][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:12.970][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:12.971][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:12.972][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:12.973][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:12.974][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:12.976][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:12.977][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:12.977][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:12.978][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:12.979][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:04:12.980][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:12.981][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:12.982][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:12.983][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:04:12.984][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:12.985][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:12.986][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:12.987][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:12.988][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:12.989][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:12.990][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:12.991][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:12.992][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:12.993][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:12.994][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:12.995][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:12.996][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:12.997][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:12.998][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:12.999][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:13.000][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:13.001][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:13.002][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:13.003][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:13.004][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:13.004][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:13.005][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:13.006][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:13.007][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:13.008][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:13.009][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:13.010][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:13.011][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:13.012][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:13.013][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:13.014][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:13.015][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:13.016][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:13.017][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:13.018][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:13.019][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:13.020][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:13.021][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:13.022][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:13.023][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:13.024][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:13.025][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:13.026][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:13.027][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:13.028][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:13.029][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:13.030][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:13.031][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:13.032][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:13.033][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:13.034][self$createEntryFromContent] Accession numbers: 132338.
biodb.TRACE[2025-08-30 16:04:13.035][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:13.036][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:13.037][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:13.038][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:13.039][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:13.040][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:13.041][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:13.042][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:13.043][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:13.044][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:13.045][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:13.046][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:13.047][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:13.048][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:13.049][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:13.053][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:13.054][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:13.055][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:13.056][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:04:13.057][private$loadEntries] Creating entries from ids [1]: "139019".
biodb.DEBUG[2025-08-30 16:04:13.058][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-08-30 16:04:13.060][cch$loadFileContent] Trying to load 1 files from cache: [1]: "139019".
biodb.TRACE[2025-08-30 16:04:13.061][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-08-30 16:04:13.062][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-08-30 16:04:13.063][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-30 16:04:13.064][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-08-30 16:04:13.065][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-08-30 16:04:13.066][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-08-30 16:04:13.069][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:13.070][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:13.071][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:13.075][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:13.076][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:13.077][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:13.078][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:04:13.079][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=139019".
biodb.DEBUG[2025-08-30 16:04:13.082][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-08-30 16:04:13.083][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-08-30 16:04:13.084][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=139019".
biodb.TRACE[2025-08-30 16:04:13.431][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=139019).
biodb.DEBUG[2025-08-30 16:04:13.780][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-08-30 16:04:13.785][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/c6e6f1783364d5307c1e22caca9f3324.content"
biodb.TRACE[2025-08-30 16:04:13.792][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/c6e6f1783364d5307c1e22caca9f3324.request"
biodb.TRACE[2025-08-30 16:04:13.797][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/139019.xml"
biodb.DEBUG[2025-08-30 16:04:13.800][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-08-30 16:04:13.803][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-30 16:04:13.806][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-30 16:04:13.809][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:13.811][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:13.813][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:13.823][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:13.825][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:13.826][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:13.828][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:13.832][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:13.834][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:13.835][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:13.837][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:13.839][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:13.840][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:13.842][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:13.843][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:13.845][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:13.846][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:13.847][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:13.849][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:13.850][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:13.852][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:13.853][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:13.854][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:13.855][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:13.857][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:13.858][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:13.859][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:13.860][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:13.861][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:13.862][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:13.863][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:13.865][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:13.866][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:13.867][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:13.868][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:13.869][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:13.870][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:13.871][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:13.872][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:13.873][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:13.874][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:13.875][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:13.876][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:13.877][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:13.878][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:13.879][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:13.880][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:13.881][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:13.882][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:13.883][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:13.884][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:13.885][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:04:13.886][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:13.887][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:13.888][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:13.889][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:04:13.890][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:13.891][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:13.892][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:13.893][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:13.894][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:13.895][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:13.895][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:13.897][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:13.898][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:13.899][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:13.899][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:13.900][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:13.901][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:13.902][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:13.903][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:13.905][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:13.906][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:13.907][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:13.907][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:13.908][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:04:13.909][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:13.910][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:13.911][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:13.912][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:04:13.913][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:13.914][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:13.915][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:13.916][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:13.917][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:13.918][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:13.919][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:13.920][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:13.921][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:13.922][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:13.923][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:13.924][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:13.925][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:13.926][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:13.927][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:13.928][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:13.929][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:13.930][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:13.931][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:13.932][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:13.933][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:13.934][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:13.934][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:13.935][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:13.936][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:13.937][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:13.938][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:13.939][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:13.940][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:13.941][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:13.942][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:13.943][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:13.944][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:13.945][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:13.946][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:13.947][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:13.948][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:13.949][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:13.950][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:13.951][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:13.952][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:13.953][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:13.954][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:13.954][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:13.955][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:13.956][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:13.957][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:13.958][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:13.959][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:13.960][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:13.961][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:13.962][self$createEntryFromContent] Accession numbers: 139019.
biodb.TRACE[2025-08-30 16:04:13.963][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:13.964][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:13.965][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:13.966][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:13.967][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:13.968][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:13.969][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:13.970][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:13.971][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:13.972][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:13.973][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:13.974][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:13.975][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:13.975][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:13.976][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:13.981][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:13.981][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:13.982][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:14.156][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:04:14.157][private$loadEntries] Creating entries from ids [1]: "139367".
biodb.DEBUG[2025-08-30 16:04:14.158][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-08-30 16:04:14.159][cch$loadFileContent] Trying to load 1 files from cache: [1]: "139367".
biodb.TRACE[2025-08-30 16:04:14.161][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-08-30 16:04:14.162][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-08-30 16:04:14.163][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-30 16:04:14.164][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-08-30 16:04:14.165][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-08-30 16:04:14.165][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-08-30 16:04:14.168][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:14.169][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:14.169][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:14.174][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:14.174][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:14.175][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:14.176][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:04:14.177][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=139367".
biodb.DEBUG[2025-08-30 16:04:14.180][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-08-30 16:04:14.181][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-08-30 16:04:14.182][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=139367".
biodb.TRACE[2025-08-30 16:04:14.521][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=139367).
biodb.DEBUG[2025-08-30 16:04:14.914][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-08-30 16:04:14.918][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/ad7d38680a9a89d96fe967aa23d4180d.content"
biodb.TRACE[2025-08-30 16:04:14.926][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/ad7d38680a9a89d96fe967aa23d4180d.request"
biodb.TRACE[2025-08-30 16:04:14.931][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/139367.xml"
biodb.DEBUG[2025-08-30 16:04:14.934][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-08-30 16:04:14.937][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-30 16:04:14.940][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-30 16:04:14.943][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:14.945][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:14.947][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:14.958][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:14.960][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:14.962][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:14.964][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:14.969][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:14.972][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:14.974][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:14.976][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:14.978][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:14.980][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:14.982][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:14.984][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:14.986][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:14.988][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:14.989][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:14.991][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:14.993][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:14.994][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:14.996][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:14.997][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:14.999][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:15.000][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:15.001][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:15.003][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:15.004][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:15.006][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:15.007][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:15.008][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:15.009][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:15.011][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:15.012][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:15.013][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:15.014][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:15.015][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:15.016][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:15.017][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:15.019][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:15.020][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:15.021][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:15.022][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:15.023][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:15.024][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:15.025][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:15.026][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:15.027][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:15.028][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:15.029][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:15.029][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:15.031][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:04:15.032][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:15.032][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:15.033][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:15.034][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:04:15.035][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:15.036][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:15.037][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:15.038][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:15.039][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:15.040][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:15.041][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:15.042][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:15.043][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:15.044][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:15.045][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:15.046][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:15.047][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:15.048][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:15.049][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:15.050][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:15.051][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:15.052][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:15.053][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:15.054][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:04:15.055][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:15.056][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:15.057][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:15.058][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:04:15.059][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:15.060][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:15.061][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:15.062][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:15.063][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:15.063][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:15.064][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:15.065][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:15.066][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:15.067][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:15.068][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:15.069][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:15.070][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:15.071][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:15.072][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:15.073][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:15.074][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:15.075][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:15.076][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:15.077][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:15.078][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:15.079][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:15.080][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:15.080][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:15.081][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:15.082][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:15.083][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:15.084][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:15.085][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:15.086][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:15.087][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:15.088][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:15.089][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:15.090][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:15.091][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:15.092][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:15.093][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:15.094][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:15.095][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:15.096][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:15.097][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:15.098][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:15.099][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:15.100][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:15.101][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:15.102][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:15.103][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:15.104][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:15.105][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:15.106][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:15.107][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:15.108][self$createEntryFromContent] Accession numbers: 139367.
biodb.TRACE[2025-08-30 16:04:15.109][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:15.110][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:15.111][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:15.111][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:15.112][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:15.113][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:15.114][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:15.115][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:15.116][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:15.117][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:15.118][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:15.119][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:15.120][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:15.121][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:15.122][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:15.126][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:15.127][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:15.128][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:15.129][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:04:15.130][private$loadEntries] Creating entries from ids [1]: "145029".
biodb.DEBUG[2025-08-30 16:04:15.131][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-08-30 16:04:15.132][cch$loadFileContent] Trying to load 1 files from cache: [1]: "145029".
biodb.TRACE[2025-08-30 16:04:15.134][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-08-30 16:04:15.135][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-08-30 16:04:15.136][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-30 16:04:15.137][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-08-30 16:04:15.138][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-08-30 16:04:15.139][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-08-30 16:04:15.141][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:15.142][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:15.143][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:15.147][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:15.148][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:15.149][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:15.150][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:04:15.151][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=145029".
biodb.DEBUG[2025-08-30 16:04:15.153][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-08-30 16:04:15.154][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-08-30 16:04:15.156][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=145029".
biodb.TRACE[2025-08-30 16:04:15.498][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=145029).
biodb.DEBUG[2025-08-30 16:04:15.914][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-08-30 16:04:15.918][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/6db4642c7bdbd10dc105b3470394caa5.content"
biodb.TRACE[2025-08-30 16:04:15.926][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/6db4642c7bdbd10dc105b3470394caa5.request"
biodb.TRACE[2025-08-30 16:04:15.931][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/145029.xml"
biodb.DEBUG[2025-08-30 16:04:15.934][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-08-30 16:04:15.937][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-30 16:04:15.940][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-30 16:04:15.944][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:15.946][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:15.948][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:15.957][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:15.959][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:15.961][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:15.963][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:15.967][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:15.969][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:15.970][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:15.972][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:15.974][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:15.975][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:15.977][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:15.978][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:15.980][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:15.981][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:15.982][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:15.984][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:15.985][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:15.987][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:15.988][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:15.989][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:15.990][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:15.992][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:15.993][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:15.994][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:15.995][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:15.996][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:15.997][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:15.998][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:15.999][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:16.001][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:16.002][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:16.003][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:16.004][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:16.005][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:16.006][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:16.007][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:16.008][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:16.009][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:16.010][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:16.010][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:16.012][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:16.013][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:16.014][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:16.014][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:16.016][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:16.017][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:16.017][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:16.018][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:16.020][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:04:16.021][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:16.021][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:16.022][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:16.023][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:04:16.025][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:16.025][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:16.026][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:16.027][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:16.028][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:16.029][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:16.030][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:16.031][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:16.032][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:16.033][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:16.034][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:16.035][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:16.036][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:16.037][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:16.038][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:16.039][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:16.040][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:16.041][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:16.042][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:16.043][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:04:16.044][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:16.045][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:16.046][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:16.047][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:04:16.048][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:16.049][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:16.050][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:16.051][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:16.052][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:16.053][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:16.054][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:16.066][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:16.067][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:16.068][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:16.069][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:16.070][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:16.071][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:16.072][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:16.072][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:16.073][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:16.074][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:16.075][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:16.076][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:16.077][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:16.078][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:16.079][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:16.080][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:16.081][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:16.082][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:16.083][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:16.084][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:16.085][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:16.086][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:16.086][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:16.087][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:16.088][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:16.089][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:16.090][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:16.091][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:16.092][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:16.093][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:16.094][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:16.095][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:16.096][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:16.097][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:16.098][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:16.099][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:16.099][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:16.100][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:16.101][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:16.102][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:16.103][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:16.104][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:16.105][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:16.106][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:16.107][self$createEntryFromContent] Accession numbers: 145029.
biodb.TRACE[2025-08-30 16:04:16.108][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:16.109][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:16.110][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:16.111][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:16.112][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:16.113][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:16.114][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:16.114][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:16.115][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:16.116][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:16.117][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:16.118][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:16.119][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:16.120][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:16.121][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:16.125][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:16.126][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:16.126][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:16.127][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:04:16.128][private$loadEntries] Creating entries from ids [1]: "173077".
biodb.DEBUG[2025-08-30 16:04:16.129][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-08-30 16:04:16.131][cch$loadFileContent] Trying to load 1 files from cache: [1]: "173077".
biodb.TRACE[2025-08-30 16:04:16.132][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-08-30 16:04:16.133][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-08-30 16:04:16.134][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-30 16:04:16.135][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-08-30 16:04:16.136][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-08-30 16:04:16.137][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-08-30 16:04:16.139][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:16.140][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:16.141][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:16.145][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:16.146][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:16.146][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:16.147][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:04:16.148][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=173077".
biodb.DEBUG[2025-08-30 16:04:16.151][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-08-30 16:04:16.152][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-08-30 16:04:16.153][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=173077".
biodb.TRACE[2025-08-30 16:04:16.507][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=173077).
biodb.DEBUG[2025-08-30 16:04:16.938][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-08-30 16:04:16.943][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/337fedbe654250105ac3b03683794b9b.content"
biodb.TRACE[2025-08-30 16:04:16.950][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/337fedbe654250105ac3b03683794b9b.request"
biodb.TRACE[2025-08-30 16:04:16.955][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/173077.xml"
biodb.DEBUG[2025-08-30 16:04:16.958][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-08-30 16:04:16.961][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-30 16:04:16.964][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-30 16:04:16.967][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:16.969][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:16.971][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:16.981][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:16.983][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:16.985][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:16.986][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:16.990][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:16.992][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:16.993][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:16.995][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:16.997][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:16.998][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:17.000][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:17.001][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:17.003][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:17.004][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:17.005][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:17.007][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:17.008][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:17.010][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:17.011][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:17.012][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:17.013][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:17.014][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:17.016][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:17.017][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:17.018][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:17.019][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:17.021][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:17.022][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:17.024][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:17.025][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:17.026][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:17.027][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:17.028][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:17.029][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:17.030][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:17.031][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:17.032][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:17.033][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:17.034][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:17.035][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:17.036][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:17.037][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:17.038][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:17.039][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:17.040][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:17.041][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:17.042][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:17.043][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:17.044][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:04:17.045][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:17.046][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:17.047][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:17.048][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:04:17.049][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:17.050][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:17.051][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:17.052][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:17.053][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:17.054][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:17.055][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:17.056][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:17.057][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:17.058][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:17.059][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:17.060][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:17.061][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:17.062][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:17.062][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:17.064][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:17.065][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:17.066][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:17.067][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:17.068][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:04:17.069][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:17.070][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:17.071][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:17.072][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:04:17.073][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:17.074][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:17.074][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:17.076][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:17.077][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:17.077][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:17.078][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:17.079][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:17.080][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:17.081][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:17.082][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:17.083][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:17.084][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:17.085][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:17.086][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:17.087][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:17.088][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:17.089][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:17.090][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:17.091][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:17.092][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:17.093][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:17.094][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:17.095][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:17.096][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:17.097][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:17.098][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:17.099][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:17.100][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:17.100][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:17.101][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:17.102][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:17.103][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:17.104][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:17.105][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:17.106][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:17.107][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:17.108][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:17.109][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:17.110][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:17.111][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:17.112][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:17.113][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:17.114][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:17.115][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:17.116][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:17.117][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:17.118][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:17.119][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:17.120][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:17.121][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:17.122][self$createEntryFromContent] Accession numbers: 173077.
biodb.TRACE[2025-08-30 16:04:17.123][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:17.124][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:17.125][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:17.126][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:17.127][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:17.128][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:17.129][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:17.129][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:17.130][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:17.131][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:17.132][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:17.133][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:17.134][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:17.135][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:17.136][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:17.140][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:17.141][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:17.142][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:17.143][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:04:17.144][private$loadEntries] Creating entries from ids [1]: "365445".
biodb.DEBUG[2025-08-30 16:04:17.145][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-08-30 16:04:17.146][cch$loadFileContent] Trying to load 1 files from cache: [1]: "365445".
biodb.TRACE[2025-08-30 16:04:17.147][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-08-30 16:04:17.148][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-08-30 16:04:17.149][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-30 16:04:17.150][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-08-30 16:04:17.151][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-08-30 16:04:17.152][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-08-30 16:04:17.155][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:17.156][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:17.156][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:17.160][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:17.161][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:17.162][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:17.163][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:04:17.164][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=365445".
biodb.DEBUG[2025-08-30 16:04:17.167][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-08-30 16:04:17.168][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-08-30 16:04:17.169][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=365445".
biodb.TRACE[2025-08-30 16:04:17.535][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=365445).
biodb.DEBUG[2025-08-30 16:04:17.881][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-08-30 16:04:17.885][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/026ecb4be6491f40bcefe5cdf8425328.content"
biodb.TRACE[2025-08-30 16:04:17.892][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/026ecb4be6491f40bcefe5cdf8425328.request"
biodb.TRACE[2025-08-30 16:04:17.898][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/365445.xml"
biodb.DEBUG[2025-08-30 16:04:17.901][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-08-30 16:04:17.904][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-30 16:04:17.906][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-30 16:04:17.910][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:17.912][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:17.914][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:17.923][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:17.925][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:17.927][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:17.929][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:17.932][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:17.934][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:17.936][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:17.937][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:17.939][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:17.941][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:17.942][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:17.944][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:17.945][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:17.947][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:17.948][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:17.949][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:17.951][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:17.952][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:17.953][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:17.954][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:17.967][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:17.968][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:17.969][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:17.970][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:17.972][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:17.973][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:17.974][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:17.974][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:17.975][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:17.976][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:17.977][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:17.978][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:17.979][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:17.980][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:17.981][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:17.982][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:17.983][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:17.984][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:17.985][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:17.986][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:17.987][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:17.988][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:17.989][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:17.990][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:17.991][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:17.992][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:17.993][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:17.993][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:17.995][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:04:17.996][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:17.996][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:17.997][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:17.998][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:04:17.999][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:18.000][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:18.001][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:18.002][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:18.003][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:18.004][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:18.005][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:18.006][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:18.007][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:18.008][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:18.009][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:18.010][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:18.011][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:18.012][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:18.013][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:18.014][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:18.015][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:18.016][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:18.017][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:18.018][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:04:18.019][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:18.020][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:18.020][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:18.021][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:04:18.022][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:18.023][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:18.024][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:18.025][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:18.026][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:18.027][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:18.028][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:18.029][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:18.030][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:18.031][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:18.032][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:18.033][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:18.034][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:18.035][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:18.036][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:18.037][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:18.038][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:18.039][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:18.039][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:18.040][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:18.041][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:18.042][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:18.043][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:18.044][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:18.045][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:18.046][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:18.047][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:18.048][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:18.049][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:18.050][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:18.051][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:18.052][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:18.053][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:18.053][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:18.054][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:18.055][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:18.056][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:18.057][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:18.058][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:18.059][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:18.060][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:18.061][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:18.062][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:18.063][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:18.064][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:18.065][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:18.066][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:18.067][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:18.068][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:18.068][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:18.069][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:18.070][self$createEntryFromContent] Accession numbers: 365445.
biodb.TRACE[2025-08-30 16:04:18.071][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:18.072][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:18.073][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:18.074][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:18.075][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:18.076][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:18.077][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:18.078][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:18.079][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:18.080][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:18.081][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:18.082][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:18.082][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:18.083][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:18.084][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:18.088][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:18.089][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:18.090][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:18.091][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:04:18.092][private$loadEntries] Creating entries from ids [1]: "32151".
biodb.DEBUG[2025-08-30 16:04:18.093][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-08-30 16:04:18.094][cch$loadFileContent] Trying to load 1 files from cache: [1]: "32151".
biodb.TRACE[2025-08-30 16:04:18.096][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-08-30 16:04:18.097][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-08-30 16:04:18.098][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-30 16:04:18.099][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-08-30 16:04:18.100][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-08-30 16:04:18.100][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-08-30 16:04:18.103][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:18.104][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:18.105][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:18.109][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:18.109][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:18.110][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:18.111][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:04:18.112][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=32151".
biodb.DEBUG[2025-08-30 16:04:18.115][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-08-30 16:04:18.116][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-08-30 16:04:18.117][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=32151".
biodb.TRACE[2025-08-30 16:04:18.471][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=32151).
biodb.DEBUG[2025-08-30 16:04:18.814][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-08-30 16:04:18.820][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/094c4c16dd654c0e11594a0cd5a42217.content"
biodb.TRACE[2025-08-30 16:04:18.829][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/094c4c16dd654c0e11594a0cd5a42217.request"
biodb.TRACE[2025-08-30 16:04:18.835][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/32151.xml"
biodb.DEBUG[2025-08-30 16:04:18.839][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-08-30 16:04:18.842][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-30 16:04:18.845][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-30 16:04:18.850][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:18.852][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:18.854][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:18.867][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:18.868][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:18.870][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:18.871][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:18.876][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:18.877][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:18.879][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:18.880][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:18.882][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:18.884][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:18.885][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:18.886][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:18.888][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:18.889][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:18.890][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:18.891][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:18.893][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:18.894][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:18.896][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:18.897][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:18.898][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:18.899][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:18.900][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:18.901][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:18.903][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:18.904][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:18.905][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:18.906][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:18.907][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:18.908][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:18.909][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:18.910][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:18.912][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:18.913][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:18.914][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:18.915][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:18.916][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:18.917][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:18.918][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:18.919][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:18.920][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:18.921][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:18.922][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:18.923][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:18.924][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:18.925][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:18.926][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:18.927][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:18.929][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:04:18.930][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:18.931][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:18.932][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:18.933][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:04:18.934][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:18.935][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:18.936][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:18.937][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:18.938][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:18.939][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:18.940][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:18.941][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:18.943][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:18.944][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:18.944][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:18.946][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:18.947][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:18.948][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:18.949][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:18.950][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:18.951][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:18.952][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:18.953][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:18.954][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:04:18.955][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:18.956][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:18.957][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:18.959][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:04:18.960][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:18.961][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:18.962][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:18.963][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:18.964][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:18.965][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:18.966][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:18.967][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:18.968][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:18.969][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:18.970][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:18.971][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:18.973][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:18.974][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:18.975][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:18.976][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:18.977][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:18.978][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:18.979][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:18.980][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:18.981][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:18.982][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:18.983][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:18.984][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:18.985][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:18.986][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:18.987][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:18.988][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:18.989][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:18.990][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:18.991][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:18.992][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:18.993][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:18.994][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:18.995][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:18.996][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:18.997][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:18.998][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:18.999][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:19.001][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:19.002][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:19.003][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:19.004][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:19.005][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:19.006][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:19.007][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:19.008][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:19.009][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:19.010][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:19.011][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:19.012][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:19.013][self$createEntryFromContent] Accession numbers: 32151.
biodb.TRACE[2025-08-30 16:04:19.014][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:19.016][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:19.017][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:19.018][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:19.019][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:19.020][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:19.021][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:19.022][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:19.023][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:19.024][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:19.025][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:19.026][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:19.027][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:19.028][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:19.029][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:19.034][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:19.035][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:19.035][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:19.036][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:04:19.038][private$loadEntries] Creating entries from ids [1]: "67676".
biodb.DEBUG[2025-08-30 16:04:19.039][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-08-30 16:04:19.056][cch$loadFileContent] Trying to load 1 files from cache: [1]: "67676".
biodb.TRACE[2025-08-30 16:04:19.057][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-08-30 16:04:19.058][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-08-30 16:04:19.060][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-30 16:04:19.061][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-08-30 16:04:19.062][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-08-30 16:04:19.063][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-08-30 16:04:19.065][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:19.066][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:19.067][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:19.071][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:19.072][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:19.073][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:19.074][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:04:19.075][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=67676".
biodb.DEBUG[2025-08-30 16:04:19.078][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-08-30 16:04:19.079][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-08-30 16:04:19.080][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=67676".
biodb.TRACE[2025-08-30 16:04:19.421][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=67676).
biodb.DEBUG[2025-08-30 16:04:19.760][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-08-30 16:04:19.765][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/f87eff9f669415e5528b4d9281ce70e2.content"
biodb.TRACE[2025-08-30 16:04:19.772][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/f87eff9f669415e5528b4d9281ce70e2.request"
biodb.TRACE[2025-08-30 16:04:19.778][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/67676.xml"
biodb.DEBUG[2025-08-30 16:04:19.782][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-08-30 16:04:19.785][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-30 16:04:19.788][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-30 16:04:19.792][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:19.794][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:19.796][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:19.806][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:19.808][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:19.810][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:19.811][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:19.815][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:19.817][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:19.819][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:19.820][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:19.822][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:19.824][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:19.825][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:19.827][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:19.828][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:19.830][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:19.831][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:19.832][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:19.834][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:19.835][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:19.837][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:19.838][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:19.839][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:19.840][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:19.841][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:19.842][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:19.844][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:19.845][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:19.846][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:19.847][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:19.848][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:19.849][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:19.850][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:19.851][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:19.853][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:19.854][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:19.855][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:19.856][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:19.857][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:19.858][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:19.859][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:19.860][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:19.861][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:19.862][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:19.863][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:19.864][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:19.865][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:19.866][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:19.867][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:19.868][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:19.869][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:04:19.870][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:19.871][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:19.872][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:19.874][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:04:19.875][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:19.876][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:19.877][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:19.878][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:19.879][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:19.880][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:19.881][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:19.882][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:19.883][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:19.884][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:19.885][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:19.886][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:19.887][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:19.888][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:19.889][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:19.891][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:19.892][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:19.893][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:19.894][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:19.895][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:04:19.896][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:19.897][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:19.898][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:19.899][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:04:19.900][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:19.901][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:19.902][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:19.903][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:19.904][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:19.905][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:19.906][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:19.908][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:19.909][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:19.910][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:19.911][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:19.912][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:19.913][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:19.914][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:19.915][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:19.916][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:19.917][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:19.918][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:19.919][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:19.920][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:19.921][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:19.922][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:19.923][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:19.924][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:19.925][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:19.926][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:19.927][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:19.928][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:19.929][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:19.930][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:19.932][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:19.933][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:19.934][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:19.935][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:19.936][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:19.937][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:19.938][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:19.939][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:19.939][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:19.941][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:19.942][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:19.942][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:19.943][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:19.944][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:19.945][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:19.946][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:19.947][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:19.948][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:19.949][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:19.950][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:19.951][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:19.952][self$createEntryFromContent] Accession numbers: 67676.
biodb.TRACE[2025-08-30 16:04:19.953][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:19.954][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:19.955][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:19.956][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:19.957][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:19.958][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:19.959][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:19.960][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:19.961][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:19.962][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:19.963][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:19.964][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:19.964][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:19.965][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:19.966][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:19.971][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:19.972][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:19.973][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:19.974][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:04:19.975][private$loadEntries] Creating entries from ids [1]: "69690".
biodb.DEBUG[2025-08-30 16:04:19.976][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-08-30 16:04:19.977][cch$loadFileContent] Trying to load 1 files from cache: [1]: "69690".
biodb.TRACE[2025-08-30 16:04:19.978][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-08-30 16:04:19.980][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-08-30 16:04:19.981][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-30 16:04:19.982][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-08-30 16:04:19.983][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-08-30 16:04:19.984][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-08-30 16:04:19.986][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:19.987][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:19.988][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:19.992][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:19.993][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:19.994][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:19.995][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:04:19.996][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=69690".
biodb.DEBUG[2025-08-30 16:04:19.998][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-08-30 16:04:19.999][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-08-30 16:04:20.001][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=69690".
biodb.TRACE[2025-08-30 16:04:20.352][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=69690).
biodb.DEBUG[2025-08-30 16:04:20.696][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-08-30 16:04:20.701][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/4ce43467f7e4550d502ff0cc79c06666.content"
biodb.TRACE[2025-08-30 16:04:20.708][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/4ce43467f7e4550d502ff0cc79c06666.request"
biodb.TRACE[2025-08-30 16:04:20.713][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/69690.xml"
biodb.DEBUG[2025-08-30 16:04:20.716][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-08-30 16:04:20.719][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-30 16:04:20.722][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-30 16:04:20.725][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:20.727][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:20.729][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:20.739][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:20.741][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:20.742][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:20.744][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:20.748][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:20.750][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:20.751][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:20.753][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:20.755][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:20.756][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:20.758][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:20.759][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:20.761][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:20.762][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:20.763][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:20.765][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:20.766][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:20.768][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:20.769][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:20.770][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:20.771][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:20.773][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:20.774][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:20.775][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:20.776][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:20.777][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:20.778][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:20.779][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:20.780][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:20.782][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:20.783][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:20.784][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:20.785][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:20.786][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:20.787][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:20.788][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:20.789][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:20.790][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:20.791][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:20.792][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:20.793][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:20.794][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:20.795][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:20.795][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:20.796][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:20.797][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:20.798][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:20.799][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:20.800][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:04:20.801][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:20.802][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:20.803][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:20.804][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:04:20.805][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:20.806][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:20.807][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:20.808][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:20.809][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:20.810][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:20.811][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:20.812][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:20.813][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:20.814][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:20.815][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:20.816][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:20.817][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:20.818][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:20.819][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:20.820][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:20.821][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:20.822][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:20.823][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:20.824][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:04:20.825][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:20.826][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:20.827][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:20.828][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:04:20.829][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:20.830][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:20.831][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:20.832][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:20.833][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:20.834][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:20.835][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:20.836][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:20.837][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:20.838][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:20.849][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:20.851][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:20.852][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:20.852][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:20.853][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:20.854][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:20.855][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:20.856][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:20.857][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:20.858][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:20.859][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:20.860][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:20.861][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:20.862][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:20.863][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:20.864][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:20.864][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:20.865][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:20.866][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:20.867][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:20.868][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:20.869][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:20.870][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:20.871][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:20.872][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:20.873][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:20.874][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:20.875][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:20.876][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:20.877][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:20.878][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:20.879][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:20.879][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:20.880][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:20.881][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:20.882][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:20.883][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:20.884][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:20.885][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:20.886][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:20.887][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:20.888][self$createEntryFromContent] Accession numbers: 69690.
biodb.TRACE[2025-08-30 16:04:20.889][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:20.890][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:20.891][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:20.892][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:20.892][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:20.893][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:20.894][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:20.895][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:20.896][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:20.897][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:20.898][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:20.899][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:20.900][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:20.901][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:20.902][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:20.906][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:20.907][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:20.907][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:20.908][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:04:20.909][private$loadEntries] Creating entries from ids [1]: "69734".
biodb.DEBUG[2025-08-30 16:04:20.910][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-08-30 16:04:20.912][cch$loadFileContent] Trying to load 1 files from cache: [1]: "69734".
biodb.TRACE[2025-08-30 16:04:20.913][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-08-30 16:04:20.914][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-08-30 16:04:20.915][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-30 16:04:20.916][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-08-30 16:04:20.917][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-08-30 16:04:20.918][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-08-30 16:04:20.920][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:20.921][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:20.922][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:20.926][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:20.927][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:20.928][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:20.928][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:04:20.929][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=69734".
biodb.DEBUG[2025-08-30 16:04:20.932][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-08-30 16:04:20.933][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-08-30 16:04:20.934][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=69734".
biodb.TRACE[2025-08-30 16:04:21.277][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=69734).
biodb.DEBUG[2025-08-30 16:04:21.625][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-08-30 16:04:21.629][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/3ed7db8dba94801a8856f9bde313afe1.content"
biodb.TRACE[2025-08-30 16:04:21.637][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/3ed7db8dba94801a8856f9bde313afe1.request"
biodb.TRACE[2025-08-30 16:04:21.642][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/69734.xml"
biodb.DEBUG[2025-08-30 16:04:21.645][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-08-30 16:04:21.648][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-30 16:04:21.651][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-30 16:04:21.654][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:21.656][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:21.658][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:21.668][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:21.670][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:21.671][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:21.673][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:21.677][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:21.679][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:21.680][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:21.682][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:21.684][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:21.685][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:21.687][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:21.688][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:21.690][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:21.691][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:21.692][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:21.694][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:21.695][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:21.696][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:21.698][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:21.699][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:21.700][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:21.701][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:21.702][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:21.704][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:21.705][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:21.706][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:21.707][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:21.708][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:21.709][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:21.710][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:21.711][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:21.712][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:21.714][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:21.715][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:21.716][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:21.717][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:21.718][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:21.719][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:21.720][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:21.720][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:21.722][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:21.723][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:21.724][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:21.724][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:21.726][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:21.727][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:21.727][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:21.728][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:21.729][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:04:21.730][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:21.731][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:21.732][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:21.733][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:04:21.734][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:21.735][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:21.736][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:21.737][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:21.738][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:21.739][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:21.740][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:21.741][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:21.742][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:21.743][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:21.744][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:21.745][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:21.746][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:21.747][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:21.748][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:21.749][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:21.750][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:21.751][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:21.752][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:21.753][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:04:21.754][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:21.755][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:21.756][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:21.757][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:04:21.758][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:21.759][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:21.760][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:21.761][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:21.762][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:21.763][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:21.764][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:21.765][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:21.766][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:21.767][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:21.767][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:21.769][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:21.770][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:21.770][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:21.771][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:21.772][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:21.773][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:21.774][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:21.775][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:21.776][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:21.777][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:21.778][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:21.779][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:21.780][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:21.781][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:21.782][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:21.783][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:21.784][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:21.785][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:21.785][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:21.786][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:21.787][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:21.788][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:21.789][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:21.790][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:21.791][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:21.792][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:21.793][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:21.794][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:21.795][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:21.796][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:21.797][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:21.798][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:21.799][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:21.800][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:21.801][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:21.801][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:21.802][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:21.803][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:21.804][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:21.805][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:21.806][self$createEntryFromContent] Accession numbers: 69734.
biodb.TRACE[2025-08-30 16:04:21.807][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:21.808][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:21.809][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:21.810][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:21.811][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:21.812][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:21.813][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:21.814][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:21.815][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:21.816][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:21.817][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:21.818][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:21.818][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:21.819][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:21.820][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:21.824][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:21.825][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:21.826][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:21.827][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:04:21.828][private$loadEntries] Creating entries from ids [1]: "79978".
biodb.DEBUG[2025-08-30 16:04:21.829][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-08-30 16:04:21.831][cch$loadFileContent] Trying to load 1 files from cache: [1]: "79978".
biodb.TRACE[2025-08-30 16:04:21.832][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-08-30 16:04:21.833][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-08-30 16:04:21.834][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-30 16:04:21.835][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-08-30 16:04:21.836][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-08-30 16:04:21.837][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-08-30 16:04:21.839][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:21.840][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:21.841][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:21.845][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:21.846][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:21.847][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:21.848][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:04:21.849][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=79978".
biodb.DEBUG[2025-08-30 16:04:21.851][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-08-30 16:04:21.852][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-08-30 16:04:21.853][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=79978".
biodb.TRACE[2025-08-30 16:04:22.191][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=79978).
biodb.DEBUG[2025-08-30 16:04:22.536][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-08-30 16:04:22.540][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/fb887d003d6fc3b4aa767483d261b31c.content"
biodb.TRACE[2025-08-30 16:04:22.547][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/fb887d003d6fc3b4aa767483d261b31c.request"
biodb.TRACE[2025-08-30 16:04:22.553][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/79978.xml"
biodb.DEBUG[2025-08-30 16:04:22.556][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-08-30 16:04:22.559][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-30 16:04:22.561][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-30 16:04:22.565][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:22.567][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:22.569][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:22.579][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:22.580][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:22.582][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:22.584][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:22.588][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:22.589][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:22.591][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:22.592][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:22.594][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:22.596][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:22.597][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:22.599][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:22.600][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:22.602][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:22.603][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:22.604][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:22.606][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:22.607][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:22.608][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:22.610][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:22.611][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:22.612][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:22.625][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:22.626][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:22.627][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:22.628][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:22.629][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:22.630][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:22.631][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:22.632][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:22.633][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:22.633][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:22.635][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:22.636][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:22.636][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:22.637][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:22.638][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:22.639][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:22.640][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:22.641][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:22.642][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:22.643][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:22.644][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:22.645][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:22.646][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:22.647][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:22.648][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:22.649][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:22.650][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:22.651][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:22.652][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:22.653][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:22.654][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:04:22.655][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:22.656][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:22.656][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:22.658][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:04:22.658][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:22.659][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:22.660][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:22.661][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:22.662][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:22.663][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:22.664][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:22.665][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:22.666][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:22.667][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:22.668][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:22.669][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:22.670][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:22.671][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:22.672][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:22.673][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:22.674][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:22.675][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:22.676][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:22.677][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:04:22.678][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:22.679][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:22.680][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:22.681][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:04:22.682][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:22.683][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:22.683][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:22.684][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:22.685][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:22.686][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:22.687][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:22.688][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:22.689][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:22.690][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:22.691][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:22.692][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:22.693][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:22.694][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:22.695][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:22.696][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:22.697][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:22.698][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:22.699][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:22.700][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:22.701][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:22.701][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:22.702][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:22.703][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:22.704][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:22.705][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:22.706][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:22.707][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:22.708][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:22.709][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:22.710][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:22.711][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:22.712][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:22.713][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:22.714][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:22.714][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:22.715][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:22.716][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:22.717][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:22.718][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:22.719][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:22.720][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:22.721][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:22.722][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:22.723][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:22.724][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:22.725][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:22.726][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:22.727][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:22.728][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:22.729][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:22.730][self$createEntryFromContent] Accession numbers: 79978.
biodb.TRACE[2025-08-30 16:04:22.731][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:22.732][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:22.732][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:22.733][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:22.734][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:22.735][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:22.736][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:22.737][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:22.738][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:22.739][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:22.740][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:22.741][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:22.742][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:22.743][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:22.743][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:22.748][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:22.749][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:22.749][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:22.750][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:04:22.751][private$loadEntries] Creating entries from ids [1]: "88771".
biodb.DEBUG[2025-08-30 16:04:22.752][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-08-30 16:04:22.754][cch$loadFileContent] Trying to load 1 files from cache: [1]: "88771".
biodb.TRACE[2025-08-30 16:04:22.755][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-08-30 16:04:22.756][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-08-30 16:04:22.757][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-30 16:04:22.758][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-08-30 16:04:22.759][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-08-30 16:04:22.760][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-08-30 16:04:22.762][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:22.763][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:22.764][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:22.768][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:22.769][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:22.770][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:22.771][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:04:22.772][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=88771".
biodb.DEBUG[2025-08-30 16:04:22.774][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-08-30 16:04:22.775][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-08-30 16:04:22.776][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=88771".
biodb.TRACE[2025-08-30 16:04:23.118][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=88771).
biodb.DEBUG[2025-08-30 16:04:23.758][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-08-30 16:04:23.763][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/f96325cdb7f39b42d0ab67a7fc41aced.content"
biodb.TRACE[2025-08-30 16:04:23.770][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/f96325cdb7f39b42d0ab67a7fc41aced.request"
biodb.TRACE[2025-08-30 16:04:23.776][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/88771.xml"
biodb.DEBUG[2025-08-30 16:04:23.779][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-08-30 16:04:23.781][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-30 16:04:23.784][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-30 16:04:23.788][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:23.790][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:23.792][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:23.801][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:23.803][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:23.805][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:23.807][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:23.811][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:23.812][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:23.814][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:23.816][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:23.818][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:23.819][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:23.821][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:23.822][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:23.824][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:23.825][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:23.826][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:23.828][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:23.829][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:23.831][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:23.832][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:23.833][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:23.834][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:23.836][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:23.837][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:23.838][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:23.839][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:23.841][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:23.842][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:23.843][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:23.844][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:23.845][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:23.846][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:23.847][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:23.848][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:23.849][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:23.850][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:23.851][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:23.852][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:23.853][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:23.854][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:23.855][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:23.856][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:23.857][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:23.858][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:23.859][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:23.860][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:23.861][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:23.862][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:23.863][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:23.864][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:04:23.865][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:23.866][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:23.867][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:23.868][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:04:23.869][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:23.870][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:23.871][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:23.872][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:23.873][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:23.874][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:23.874][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:23.876][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:23.877][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:23.877][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:23.878][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:23.879][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:23.880][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:23.881][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:23.882][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:23.883][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:23.884][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:23.885][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:23.886][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:23.887][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:04:23.888][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:23.889][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:23.890][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:23.891][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:04:23.892][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:23.893][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:23.894][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:23.895][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:23.896][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:23.897][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:23.898][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:23.899][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:23.900][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:23.901][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:23.902][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:23.903][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:23.904][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:23.905][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:23.906][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:23.907][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:23.908][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:23.909][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:23.909][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:23.910][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:23.911][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:23.912][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:23.913][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:23.914][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:23.915][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:23.916][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:23.917][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:23.918][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:23.919][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:23.920][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:23.921][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:23.922][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:23.923][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:23.924][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:23.924][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:23.925][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:23.926][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:23.927][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:23.928][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:23.929][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:23.930][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:23.931][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:23.932][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:23.933][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:23.934][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:23.935][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:23.936][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:23.937][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:23.938][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:23.939][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:23.940][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:23.941][self$createEntryFromContent] Accession numbers: 88771.
biodb.TRACE[2025-08-30 16:04:23.942][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:23.943][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:23.944][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:23.944][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:23.945][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:23.946][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:23.947][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:23.948][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:23.949][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:23.950][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:23.951][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:23.952][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:23.953][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:23.954][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:23.955][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:23.959][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:23.960][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:23.961][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:23.962][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:23.971][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:23.972][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:23.973][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:23.973][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:23.974][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:23.975][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:23.976][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:23.977][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:23.978][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:23.979][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:23.980][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:23.981][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:23.982][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:23.983][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:23.983][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:23.987][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:23.988][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:23.989][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:23.990][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:23.991][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:23.992][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:23.993][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:23.994][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:23.995][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:23.996][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:23.997][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:23.998][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:23.998][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:23.999][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:24.000][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:24.001][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:24.002][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-08-30 16:04:24.004][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:24.005][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:24.006][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:24.009][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:24.010][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:24.011][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:24.012][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:24.013][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:24.014][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:24.015][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:24.016][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:24.017][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:24.018][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:24.019][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:24.020][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:24.021][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:24.021][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:04:24.022][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:04:24.023][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:04:24.024][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:24.025][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:24.026][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:24.027][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:24.028][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:24.029][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:24.030][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:24.031][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:24.032][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:24.032][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:24.033][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:24.034][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:24.035][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:24.036][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:24.037][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:24.038][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-30 16:04:24.039][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:24.040][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:24.041][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:24.042][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:24.043][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:24.044][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:24.045][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:24.045][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:24.046][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:24.047][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:24.048][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:24.049][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:24.050][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4781].
biodb.DEBUG[2025-08-30 16:04:24.051][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:24.052][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:24.053][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:24.057][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:24.058][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:24.059][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:24.060][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:24.061][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:24.062][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:24.063][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:24.064][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:24.065][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:24.066][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:24.066][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:24.067][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:24.068][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:24.069][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:04:24.070][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:04:24.071][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:04:24.072][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:24.073][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:24.074][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:24.075][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:24.076][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:24.076][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:24.077][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:24.078][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:24.079][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:24.080][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:24.081][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:24.082][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:24.083][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:24.084][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:24.085][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:24.086][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-30 16:04:24.087][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:24.088][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:24.089][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:24.089][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:24.090][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:24.091][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:24.092][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:24.093][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:24.094][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:24.095][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:24.096][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:24.097][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:24.098][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [91601].
biodb.DEBUG[2025-08-30 16:04:24.099][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:24.100][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:24.101][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:24.105][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:24.106][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:24.107][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:24.107][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:24.109][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:24.110][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:24.110][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:24.111][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:24.112][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:24.113][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:24.114][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:24.115][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:24.116][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:24.117][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:04:24.118][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:04:24.119][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:04:24.120][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:24.121][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:24.122][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:24.123][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:24.123][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:24.124][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:24.125][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:24.126][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:24.127][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:24.128][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:24.129][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:24.130][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:24.131][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:24.132][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:24.133][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:24.134][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-30 16:04:24.135][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:24.136][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:24.137][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:24.138][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:24.139][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:24.140][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:24.140][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:24.141][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:24.142][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:24.143][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:24.144][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:24.145][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:24.146][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [95147].
biodb.DEBUG[2025-08-30 16:04:24.147][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-08-30 16:04:24.148][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2025-08-30 16:04:24.150][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:24.151][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:24.152][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:24.156][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:24.157][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:24.158][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:24.158][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:04:24.161][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.1*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-08-30 16:04:24.164][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-08-30 16:04:24.165][cch$loadFileContent] Trying to load 1 files from cache: [1]: "a035d13a630066423fab6713592c5e52".
biodb.TRACE[2025-08-30 16:04:24.166][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-08-30 16:04:24.168][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/a035d13a630066423fab6713592c5e52.content".
biodb.DEBUG[2025-08-30 16:04:24.173][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:24.174][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:24.175][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:24.179][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:24.180][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:24.181][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:24.182][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:24.183][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:24.184][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:24.185][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:24.186][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:24.186][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:24.188][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:24.188][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:24.189][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:24.190][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:24.191][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:24.192][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:24.193][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:24.194][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:24.195][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:24.196][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:24.200][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:24.201][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:24.201][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:24.202][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:24.203][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:24.204][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:24.205][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:24.206][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:24.207][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:24.208][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:24.209][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:24.210][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:24.211][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:24.212][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:24.213][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:24.214][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:24.215][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:24.216][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:24.216][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:24.220][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:24.221][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:24.222][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:24.223][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:24.224][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:24.225][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:24.226][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:24.227][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:24.228][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:24.229][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:24.230][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:24.230][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:24.231][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:24.232][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:24.233][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:24.234][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:24.235][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:24.236][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:24.237][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:24.241][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:24.242][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:24.243][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:24.243][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:24.245][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:24.246][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:24.246][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:24.247][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:24.248][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:24.249][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:24.250][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:24.251][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:24.252][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:24.253][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:24.254][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:24.255][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:24.256][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-08-30 16:04:24.258][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:24.258][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:24.259][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:24.263][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:24.264][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:24.265][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:24.266][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:24.267][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:24.268][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:24.269][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:24.270][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:24.271][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:24.272][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:24.273][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:24.273][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:24.274][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:24.275][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:04:24.276][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:04:24.277][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:04:24.278][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:24.279][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:24.280][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:24.281][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:24.282][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:24.283][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:24.284][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:24.285][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:24.290][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:24.291][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:24.292][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:24.293][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:24.294][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:24.295][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:24.296][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:24.297][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-30 16:04:24.298][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:24.299][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:24.300][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:24.300][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:24.301][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:24.302][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:24.303][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:24.304][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:24.305][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:24.306][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:24.307][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:24.308][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:24.309][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [636].
biodb.DEBUG[2025-08-30 16:04:24.310][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:24.311][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:24.312][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:24.316][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:24.317][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:24.317][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:24.318][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:24.319][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:24.320][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:24.321][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:24.322][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:24.323][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:24.324][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:24.325][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:24.326][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:24.327][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:24.328][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:04:24.328][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:04:24.329][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:04:24.330][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:24.331][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:24.332][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:24.333][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:24.334][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:24.335][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:24.336][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:24.337][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:24.338][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:24.339][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:24.340][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:24.340][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:24.341][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:24.342][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:24.343][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:24.344][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-30 16:04:24.345][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:24.346][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:24.347][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:24.348][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:24.349][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:24.350][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:24.351][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:24.352][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:24.352][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:24.353][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:24.354][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:24.355][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:24.356][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [3014].
biodb.DEBUG[2025-08-30 16:04:24.357][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:24.358][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:24.359][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:24.363][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:24.364][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:24.365][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:24.366][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:24.367][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:24.368][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:24.369][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:24.370][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:24.370][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:24.371][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:24.372][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:24.373][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:24.374][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:24.375][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:04:24.376][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:04:24.377][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:04:24.378][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:24.379][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:24.380][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:24.381][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:24.381][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:24.382][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:24.383][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:24.384][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:24.385][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:24.386][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:24.387][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:24.388][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:24.389][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:24.390][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:24.391][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:24.392][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-30 16:04:24.393][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:24.394][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:24.394][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:24.395][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:24.396][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:24.397][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:24.398][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:24.399][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:24.400][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:24.401][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:24.402][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:24.403][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:24.404][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [7799].
biodb.DEBUG[2025-08-30 16:04:24.405][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-08-30 16:04:24.406][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2025-08-30 16:04:24.423][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:24.423][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:24.424][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:24.428][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:24.429][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:24.430][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:24.431][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:04:24.433][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.1*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-08-30 16:04:24.436][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-08-30 16:04:24.437][cch$loadFileContent] Trying to load 1 files from cache: [1]: "a035d13a630066423fab6713592c5e52".
biodb.TRACE[2025-08-30 16:04:24.438][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-08-30 16:04:24.440][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/a035d13a630066423fab6713592c5e52.content".
biodb.DEBUG[2025-08-30 16:04:24.445][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:24.446][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:24.447][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:24.451][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:24.451][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:24.452][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:24.453][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:24.454][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:24.455][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:24.456][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:24.457][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:24.458][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:24.459][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:24.460][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:24.461][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:24.462][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:24.463][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:24.464][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:24.465][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:24.466][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:24.466][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:24.467][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:24.471][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:24.472][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:24.473][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:24.474][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:24.475][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:24.476][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:24.477][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:24.478][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:24.479][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:24.480][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:24.480][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:24.481][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:24.482][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:24.483][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:24.484][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:24.485][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:24.486][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:24.487][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:24.488][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:24.492][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:24.492][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:24.493][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:24.494][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:24.495][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:24.496][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:24.497][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:24.498][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:24.499][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:24.500][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:24.501][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:24.502][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:24.503][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:24.504][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:24.505][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:24.506][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:24.507][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:24.507][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:24.508][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:24.512][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:24.513][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:24.514][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:24.515][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:24.516][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:24.517][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:24.518][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:24.519][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:24.520][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:24.521][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:24.521][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:24.522][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:24.523][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:24.524][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:24.525][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:24.526][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:24.527][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:24.528][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:24.529][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:24.533][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:24.534][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:24.534][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:24.535][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:24.536][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:24.537][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:24.538][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:24.539][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:24.540][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:24.541][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:24.542][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:24.543][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:24.544][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:24.545][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:24.546][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:24.547][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:24.548][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:24.548][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:24.549][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:24.553][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:24.554][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:24.555][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:24.556][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:24.557][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:24.558][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:24.559][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:24.560][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:24.561][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:24.562][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:24.562][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:24.563][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:24.564][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:24.565][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:24.566][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:24.567][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:24.568][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:24.569][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:24.570][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:24.574][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:24.575][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:24.575][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:24.576][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:24.577][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:24.578][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:24.579][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:24.580][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:24.581][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:24.582][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:24.583][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:24.584][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:24.585][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:24.586][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:24.587][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:24.588][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:24.589][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-08-30 16:04:24.590][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:24.591][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:24.592][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:24.596][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:24.597][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:24.598][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:24.598][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:24.600][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:24.601][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:24.601][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:24.602][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:24.608][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:24.609][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:24.610][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:24.611][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:24.612][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:24.613][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:04:24.614][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:04:24.614][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:04:24.615][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:24.616][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:24.617][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:24.618][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:24.619][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:24.620][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:24.621][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:24.622][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:24.623][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:24.624][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:24.625][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:24.625][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:24.626][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:24.627][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:24.628][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:24.629][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-30 16:04:24.630][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:24.631][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:24.632][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:24.633][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:24.634][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:24.635][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:24.636][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:24.637][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:24.638][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:24.639][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:24.639][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:24.640][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:24.642][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [3014].
biodb.DEBUG[2025-08-30 16:04:24.643][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:24.643][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:24.644][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:24.648][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:24.649][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:24.650][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:24.651][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:24.652][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:24.653][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:24.654][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:24.655][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:24.655][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:24.656][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:24.657][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:24.658][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:24.659][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:24.660][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:04:24.661][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:04:24.662][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:04:24.663][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:24.664][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:24.665][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:24.666][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:24.666][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:24.667][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:24.668][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:24.669][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:24.670][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:24.671][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:24.672][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:24.673][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:24.674][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:24.675][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:24.676][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:24.677][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-30 16:04:24.677][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:24.678][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:24.679][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:24.680][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:24.681][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:24.682][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:24.683][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:24.684][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:24.685][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:24.686][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:24.687][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:24.688][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:24.689][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [7799].
biodb.DEBUG[2025-08-30 16:04:24.690][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:24.691][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:24.692][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:24.696][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:24.696][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:24.697][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:24.698][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:24.699][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:24.700][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:24.701][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:24.702][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:24.703][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:24.704][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:24.705][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:24.706][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:24.707][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:24.707][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:04:24.708][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:04:24.709][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:04:24.710][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:24.711][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:24.712][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:24.713][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:24.714][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:24.715][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:24.716][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:24.717][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:24.718][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:24.719][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:24.720][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:24.720][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:24.721][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:24.722][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:24.723][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:24.724][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-30 16:04:24.725][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:24.726][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:24.727][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:24.728][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:24.729][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:24.730][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:24.731][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:24.732][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:24.733][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:24.734][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:24.734][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:24.735][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:24.737][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [34764].
biodb.DEBUG[2025-08-30 16:04:24.737][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-08-30 16:04:24.738][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2025-08-30 16:04:24.740][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:24.741][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:24.742][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:24.746][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:24.747][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:24.748][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:24.749][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:04:24.751][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=480*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-08-30 16:04:24.754][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-08-30 16:04:24.755][cch$loadFileContent] Trying to load 1 files from cache: [1]: "365d4ea5e0e90826806fec708da6c9ab".
biodb.TRACE[2025-08-30 16:04:24.756][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-08-30 16:04:24.758][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/365d4ea5e0e90826806fec708da6c9ab.content".
biodb.DEBUG[2025-08-30 16:04:24.764][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:24.765][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:24.765][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:24.770][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:24.770][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:24.771][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:24.772][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:24.773][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:24.774][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:24.775][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:24.776][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:24.777][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:24.778][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:24.779][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:24.780][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:24.781][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:24.782][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:24.783][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:24.784][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:24.785][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:24.785][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:24.786][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:24.790][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:24.791][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:24.792][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:24.793][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:24.794][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:24.795][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:24.796][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:24.797][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:24.798][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:24.799][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:24.800][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:24.801][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:24.802][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:24.803][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:24.803][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:24.804][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:24.805][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:24.806][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:24.807][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:24.811][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:24.812][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:24.813][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:24.814][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:24.815][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:24.816][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:24.817][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:24.817][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:24.818][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:24.819][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:24.820][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:24.821][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:24.822][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:24.823][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:24.824][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:24.825][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:24.826][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:24.827][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:24.828][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:24.832][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:24.832][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:24.833][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:24.834][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:24.835][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:24.836][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:24.837][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:24.838][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:24.839][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:24.840][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:24.841][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:24.842][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:24.843][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:24.844][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:24.845][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:24.846][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:24.847][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-08-30 16:04:24.848][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:24.849][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:24.850][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:24.854][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:24.855][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:24.855][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:24.856][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:24.857][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:24.858][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:24.859][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:24.860][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:24.861][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:24.862][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:24.863][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:24.864][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:24.865][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:24.866][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:04:24.867][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:04:24.868][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:04:24.869][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:24.870][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:24.871][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:24.871][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:24.872][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:24.873][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:24.874][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:24.875][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:24.876][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:24.877][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:24.878][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:24.879][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:24.880][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:24.881][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:24.882][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:24.883][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-30 16:04:24.884][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:24.885][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:24.886][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:24.886][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:24.887][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:24.888][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:24.889][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:24.890][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:24.891][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:24.892][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:24.893][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:24.894][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:24.895][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [2535].
biodb.DEBUG[2025-08-30 16:04:24.896][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:24.897][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:24.898][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:24.902][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:24.903][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:24.904][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:24.905][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:24.906][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:24.907][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:24.908][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:24.908][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:24.909][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:24.910][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:24.911][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:24.912][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:24.913][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:24.914][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:04:24.915][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:04:24.916][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:04:24.917][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:24.918][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:24.919][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:24.920][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:24.921][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:24.927][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:24.928][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:24.928][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:24.929][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:24.930][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:24.931][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:24.932][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:24.933][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:24.934][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:24.935][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:24.936][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-30 16:04:24.937][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:24.938][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:24.939][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:24.939][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:24.940][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:24.941][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:24.942][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:24.943][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:24.944][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:24.945][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:24.946][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:24.947][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:24.948][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4781].
biodb.DEBUG[2025-08-30 16:04:24.949][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:24.950][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:24.951][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:24.955][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:24.956][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:24.957][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:24.957][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:24.959][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:24.960][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:24.960][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:24.961][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:24.962][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:24.963][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:24.964][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:24.965][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:24.966][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:24.967][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:04:24.968][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:04:24.969][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:04:24.970][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:24.970][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:24.971][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:24.972][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:24.973][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:24.974][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:24.975][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:24.976][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:24.977][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:24.978][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:24.979][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:24.980][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:24.981][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:24.982][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:24.982][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:24.983][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-30 16:04:24.984][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:24.985][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:24.986][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:24.987][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:24.988][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:24.989][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:24.990][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:24.991][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:24.992][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:24.993][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:24.994][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:24.995][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:24.996][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [16587].
biodb.DEBUG[2025-08-30 16:04:24.997][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-08-30 16:04:24.998][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2025-08-30 16:04:24.999][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:25.000][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:25.001][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:25.005][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:25.006][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:25.007][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:25.008][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:04:25.010][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=409.9*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-08-30 16:04:25.013][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-08-30 16:04:25.015][cch$loadFileContent] Trying to load 1 files from cache: [1]: "7b0416ab2d5cbf869f248000c039a8e8".
biodb.TRACE[2025-08-30 16:04:25.016][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-08-30 16:04:25.017][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/7b0416ab2d5cbf869f248000c039a8e8.content".
biodb.DEBUG[2025-08-30 16:04:25.019][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:25.020][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:25.021][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:25.025][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:25.026][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:25.027][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:25.027][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:25.029][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:25.030][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:25.030][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:25.031][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:25.032][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:25.033][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:25.034][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:25.035][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:25.036][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:25.037][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:25.038][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:25.039][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:25.040][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:25.041][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:25.041][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:25.045][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:25.046][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:25.047][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:25.048][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:25.049][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:25.050][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:25.051][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:25.052][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:25.053][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:25.054][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:25.055][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:25.056][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:25.057][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:25.058][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:25.058][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:25.059][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:25.060][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:25.061][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:25.062][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:25.066][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:25.067][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:25.068][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:25.068][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:25.069][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:25.071][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:25.071][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:25.072][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:25.073][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:25.074][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:25.075][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:25.076][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:25.077][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:25.078][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:25.079][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:25.080][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:25.081][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:25.082][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:25.083][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:25.087][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:25.088][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:25.088][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:25.089][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:25.090][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:25.091][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:25.092][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:25.093][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:25.094][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:25.095][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:25.096][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:25.097][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:25.098][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:25.099][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:25.100][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:25.101][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:25.102][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:25.103][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:25.104][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:25.108][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:25.109][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:25.110][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:25.111][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:25.112][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:25.113][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:25.114][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:25.115][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:25.116][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:25.117][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:25.118][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:25.118][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:25.119][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:25.120][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:25.121][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:25.122][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:25.123][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-08-30 16:04:25.125][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:25.126][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:25.127][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:25.131][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:25.132][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:25.133][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:25.133][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:25.135][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:25.136][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:25.136][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:25.137][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:25.138][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:25.139][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:25.140][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:25.141][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:25.142][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:25.143][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:04:25.144][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:04:25.145][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:04:25.146][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:25.147][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:25.148][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:25.149][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:25.149][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:25.150][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:25.151][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:25.152][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:25.153][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:25.154][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:25.155][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:25.156][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:25.157][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:25.158][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:25.159][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:25.160][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-30 16:04:25.161][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:25.162][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:25.163][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:25.164][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:25.165][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:25.166][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:25.166][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:25.167][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:25.168][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:25.169][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:25.170][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:25.171][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:25.172][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [31303].
biodb.DEBUG[2025-08-30 16:04:25.173][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:25.174][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:25.175][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:25.179][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:25.180][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:25.181][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:25.182][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:25.183][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:25.184][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:25.185][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:25.186][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:25.187][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:25.188][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:25.189][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:25.189][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:25.190][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:25.191][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:04:25.192][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:04:25.193][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:04:25.194][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:25.195][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:25.196][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:25.197][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:25.198][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:25.199][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:25.200][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:25.201][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:25.202][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:25.202][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:25.203][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:25.204][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:25.205][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:25.206][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:25.207][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:25.208][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-30 16:04:25.209][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:25.210][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:25.211][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:25.212][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:25.213][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:25.214][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:25.215][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:25.216][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:25.217][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:25.218][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:25.219][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:25.219][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:25.221][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [81767].
biodb.DEBUG[2025-08-30 16:04:25.222][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:25.223][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:25.223][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:25.228][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:25.228][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:25.229][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:25.230][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:25.231][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:25.232][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:25.233][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:25.234][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:25.235][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:25.236][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:25.237][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:25.238][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:25.239][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:25.240][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:04:25.241][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:04:25.242][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:04:25.247][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:25.247][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:25.248][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:25.249][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:25.250][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:25.251][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:25.252][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:25.253][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:25.254][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:25.255][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:25.256][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:25.257][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:25.258][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:25.259][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:25.259][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:25.260][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-30 16:04:25.261][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:25.262][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:25.263][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:25.264][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:25.265][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:25.266][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:25.267][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:25.268][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:25.269][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:25.270][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:25.271][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:25.272][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:25.273][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [131378].
biodb.DEBUG[2025-08-30 16:04:25.274][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-08-30 16:04:25.275][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2025-08-30 16:04:25.291][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:25.292][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:25.293][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:25.296][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:25.297][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:25.298][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:25.299][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:04:25.301][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.38*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-08-30 16:04:25.304][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-08-30 16:04:25.305][cch$loadFileContent] Trying to load 1 files from cache: [1]: "49f51d93ac229648aa454636918ce386".
biodb.TRACE[2025-08-30 16:04:25.307][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-08-30 16:04:25.308][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/49f51d93ac229648aa454636918ce386.content".
biodb.DEBUG[2025-08-30 16:04:25.310][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-08-30 16:04:25.313][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-08-30 16:04:25.314][cch$loadFileContent] Trying to load 1 files from cache: [1]: "121ea95906eb67bed88948c362686e4f".
biodb.TRACE[2025-08-30 16:04:25.315][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-08-30 16:04:25.317][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/121ea95906eb67bed88948c362686e4f.content".
biodb.DEBUG[2025-08-30 16:04:25.319][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:25.320][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:25.321][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:25.324][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:25.325][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:25.326][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:25.327][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:25.328][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:25.329][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:25.330][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:25.331][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:25.332][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:25.333][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:25.334][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:25.334][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:25.335][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:25.336][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:25.337][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:25.338][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:25.339][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:25.340][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:25.341][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:25.345][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:25.345][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:25.346][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:25.347][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:25.348][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:25.349][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:25.350][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:25.351][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:25.352][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:25.353][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:25.354][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:25.355][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:25.356][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:25.357][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:25.358][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:25.358][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:25.359][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:25.360][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:25.361][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:25.365][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:25.366][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:25.367][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:25.367][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:25.369][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:25.370][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:25.370][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:25.371][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:25.372][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:25.373][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:25.374][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:25.375][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:25.376][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:25.377][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:25.378][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:25.379][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:25.380][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-08-30 16:04:25.381][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:25.382][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:25.383][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:25.387][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:25.388][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:25.388][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:25.389][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:25.390][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:25.391][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:25.392][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:25.393][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:25.394][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:25.395][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:25.396][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:25.397][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:25.398][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:25.399][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:04:25.400][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:04:25.401][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:04:25.402][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:25.403][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:25.404][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:25.404][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:25.405][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:25.406][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:25.407][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:25.408][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:25.409][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:25.410][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:25.411][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:25.412][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:25.413][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:25.414][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:25.415][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:25.416][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-30 16:04:25.417][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:25.418][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:25.419][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:25.419][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:25.420][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:25.421][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:25.422][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:25.423][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:25.424][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:25.425][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:25.426][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:25.427][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:25.428][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4648].
biodb.DEBUG[2025-08-30 16:04:25.429][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:25.430][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:25.431][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:25.435][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:25.436][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:25.437][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:25.437][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:25.439][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:25.440][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:25.440][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:25.441][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:25.442][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:25.443][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:25.444][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:25.445][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:25.446][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:25.447][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:04:25.448][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:04:25.449][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:04:25.450][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:25.451][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:25.452][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:25.453][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:25.453][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:25.454][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:25.455][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:25.456][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:25.457][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:25.458][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:25.459][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:25.460][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:25.461][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:25.462][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:25.463][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:25.464][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-30 16:04:25.465][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:25.466][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:25.467][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:25.467][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:25.468][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:25.469][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:25.470][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:25.471][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:25.472][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:25.473][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:25.474][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:25.475][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:25.476][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-08-30 16:04:25.477][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:25.478][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:25.479][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:25.483][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:25.484][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:25.485][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:25.485][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:25.487][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:25.488][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:25.488][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:25.489][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:25.490][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:25.491][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:25.492][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:25.493][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:25.494][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:25.495][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:04:25.496][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:04:25.497][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:04:25.498][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:25.499][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:25.500][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:25.500][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:25.501][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:25.502][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:25.503][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:25.504][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:25.505][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:25.506][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:25.507][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:25.508][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:25.509][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:25.510][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:25.511][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:25.512][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-30 16:04:25.513][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:25.514][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:25.514][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:25.515][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:25.516][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:25.517][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:25.518][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:25.519][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:25.520][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:25.521][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:25.522][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:25.523][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:25.524][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [62447].
biodb.DEBUG[2025-08-30 16:04:25.525][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-08-30 16:04:25.526][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2025-08-30 16:04:25.528][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:25.529][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:25.530][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:25.534][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:25.534][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:25.535][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:25.536][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:04:25.539][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=480.29*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-08-30 16:04:25.541][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-08-30 16:04:25.543][cch$loadFileContent] Trying to load 1 files from cache: [1]: "7269bbea581f1e243800f8ee4e0f4fdb".
biodb.TRACE[2025-08-30 16:04:25.544][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-08-30 16:04:25.545][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/7269bbea581f1e243800f8ee4e0f4fdb.content".
biodb.DEBUG[2025-08-30 16:04:25.547][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:25.548][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:25.549][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:25.553][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:25.554][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:25.555][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:25.556][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:25.557][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:25.558][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:25.559][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:25.559][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:25.565][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:25.566][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:25.567][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:25.567][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:25.568][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:25.569][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:25.570][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:25.571][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:25.572][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:25.573][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:25.574][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:25.578][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:25.578][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:25.579][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:25.580][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:25.581][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:25.582][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:25.583][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:25.584][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:25.585][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:25.586][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:25.587][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:25.588][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:25.589][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:25.590][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:25.590][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:25.591][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:25.592][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:25.593][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:25.594][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:25.598][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:25.599][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:25.599][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:25.600][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:25.601][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:25.602][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:25.603][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:25.604][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:25.605][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:25.606][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:25.607][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:25.608][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:25.609][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:25.610][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:25.611][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:25.612][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:25.613][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-08-30 16:04:25.614][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:25.615][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:25.616][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:25.619][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:25.620][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:25.621][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:25.622][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:25.623][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:25.624][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:25.625][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:25.626][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:25.627][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:25.628][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:25.629][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:25.629][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:25.630][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:25.631][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:04:25.632][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:04:25.633][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:04:25.634][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:25.635][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:25.636][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:25.637][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:25.638][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:25.639][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:25.640][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:25.641][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:25.641][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:25.642][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:25.643][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:25.644][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:25.645][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:25.646][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:25.647][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:25.648][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-30 16:04:25.649][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:25.650][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:25.651][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:25.652][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:25.652][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:25.653][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:25.654][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:25.655][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:25.656][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:25.657][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:25.658][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:25.659][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:25.660][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4781].
biodb.DEBUG[2025-08-30 16:04:25.661][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:25.662][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:25.663][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:25.667][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:25.668][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:25.668][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:25.669][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:25.670][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:25.671][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:25.672][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:25.673][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:25.674][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:25.675][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:25.676][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:25.677][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:25.678][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:25.679][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:04:25.680][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:04:25.680][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:04:25.681][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:25.682][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:25.683][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:25.684][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:25.685][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:25.686][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:25.687][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:25.688][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:25.689][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:25.690][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:25.691][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:25.692][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:25.693][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:25.693][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:25.694][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:25.695][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-30 16:04:25.696][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:25.697][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:25.698][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:25.699][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:25.700][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:25.701][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:25.702][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:25.703][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:25.704][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:25.705][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:25.706][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:25.706][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:25.708][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [91601].
biodb.DEBUG[2025-08-30 16:04:25.709][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:25.710][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:25.710][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:25.714][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:25.715][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:25.716][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:25.717][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:25.718][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:25.719][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:25.720][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:25.721][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:25.722][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:25.723][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:25.724][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:25.725][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:25.726][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:25.727][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:04:25.727][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:04:25.728][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:04:25.729][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:25.730][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:25.731][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:25.732][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:25.733][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:25.734][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:25.735][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:25.736][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:25.737][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:25.738][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:25.739][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:25.740][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:25.741][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:25.742][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:25.742][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:25.743][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-30 16:04:25.744][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:25.745][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:25.746][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:25.747][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:25.748][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:25.749][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:25.750][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:25.751][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:25.752][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:25.753][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:25.754][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:25.755][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:25.756][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [95147].
biodb.DEBUG[2025-08-30 16:04:25.757][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-08-30 16:04:25.758][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2025-08-30 16:04:25.760][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:25.760][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:25.761][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:25.765][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:25.766][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:25.767][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:25.768][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:04:25.770][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.17*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-08-30 16:04:25.773][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-08-30 16:04:25.774][cch$loadFileContent] Trying to load 1 files from cache: [1]: "acfa4b558978abf12409c2b56e678d03".
biodb.TRACE[2025-08-30 16:04:25.776][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-08-30 16:04:25.777][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/acfa4b558978abf12409c2b56e678d03.content".
biodb.DEBUG[2025-08-30 16:04:25.779][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:25.780][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:25.781][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:25.785][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:25.786][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:25.787][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:25.788][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:25.789][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:25.790][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:25.790][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:25.791][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:25.792][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:25.793][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:25.794][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:25.795][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:25.796][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:25.797][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:25.798][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:25.799][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:25.800][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:25.801][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:25.802][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:25.805][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:25.806][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:25.807][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:25.808][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:25.809][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:25.810][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:25.811][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:25.812][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:25.813][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:25.814][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:25.815][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:25.816][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:25.817][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:25.818][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:25.818][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:25.819][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:25.820][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:25.821][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:25.822][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:25.826][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:25.827][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:25.828][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:25.828][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:25.830][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:25.831][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:25.831][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:25.832][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:25.833][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:25.834][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:25.835][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:25.836][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:25.837][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:25.838][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:25.839][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:25.840][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:25.841][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-08-30 16:04:25.842][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:25.843][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:25.844][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:25.848][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:25.849][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:25.850][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:25.851][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:25.852][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:25.853][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:25.854][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:25.854][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:25.855][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:25.856][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:25.857][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:25.858][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:25.859][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:25.860][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:04:25.861][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:04:25.862][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:04:25.863][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:25.864][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:25.865][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:25.866][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:25.867][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:25.868][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:25.869][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:25.869][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:25.870][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:25.871][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:25.872][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:25.873][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:25.874][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:25.875][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:25.880][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:25.881][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-30 16:04:25.882][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:25.883][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:25.884][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:25.885][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:25.886][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:25.887][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:25.888][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:25.889][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:25.889][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:25.890][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:25.891][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:25.892][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:25.893][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [636].
biodb.DEBUG[2025-08-30 16:04:25.894][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:25.895][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:25.896][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:25.900][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:25.901][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:25.902][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:25.903][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:25.904][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:25.905][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:25.906][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:25.906][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:25.907][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:25.908][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:25.909][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:25.910][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:25.911][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:25.912][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:04:25.913][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:04:25.914][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:04:25.915][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:25.916][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:25.917][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:25.917][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:25.918][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:25.919][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:25.920][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:25.921][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:25.922][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:25.923][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:25.924][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:25.925][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:25.926][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:25.927][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:25.928][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:25.928][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-30 16:04:25.929][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:25.930][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:25.931][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:25.932][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:25.933][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:25.934][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:25.935][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:25.936][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:25.937][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:25.938][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:25.939][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:25.940][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:25.941][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [64199].
biodb.DEBUG[2025-08-30 16:04:25.942][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:25.943][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:25.944][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:25.947][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:25.948][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:25.949][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:25.950][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:25.951][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:25.952][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:25.953][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:25.954][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:25.955][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:25.956][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:25.957][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:25.958][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:25.958][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:25.959][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:04:25.960][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:04:25.961][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:04:25.962][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:25.963][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:25.964][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:25.965][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:25.966][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:25.967][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:25.968][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:25.969][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:25.969][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:25.970][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:25.971][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:25.972][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:25.973][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:25.974][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:25.975][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:25.976][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-30 16:04:25.977][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:25.978][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:25.979][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:25.980][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:25.981][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:25.982][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:25.982][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:25.983][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:25.984][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:25.985][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:25.986][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:25.987][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:25.988][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [65648].
biodb.DEBUG[2025-08-30 16:04:25.989][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-08-30 16:04:25.990][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2025-08-30 16:04:26.006][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:26.007][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:26.008][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:26.012][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:26.013][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:26.013][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:26.014][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:04:26.017][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.3*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-08-30 16:04:26.020][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-08-30 16:04:26.021][cch$loadFileContent] Trying to load 1 files from cache: [1]: "26eec570aadd234892b573eb0777bd78".
biodb.TRACE[2025-08-30 16:04:26.022][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-08-30 16:04:26.023][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/26eec570aadd234892b573eb0777bd78.content".
biodb.DEBUG[2025-08-30 16:04:26.026][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:26.027][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:26.028][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:26.032][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:26.032][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:26.033][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:26.034][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:26.035][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:26.036][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:26.037][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:26.038][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:26.039][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:26.040][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:26.041][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:26.042][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:26.043][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:26.044][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:26.045][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:26.046][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:26.047][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:26.048][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:26.048][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:26.052][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:26.053][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:26.054][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:26.055][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:26.056][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:26.057][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:26.058][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:26.059][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:26.060][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:26.061][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:26.062][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:26.063][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:26.064][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:26.065][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:26.065][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:26.066][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:26.067][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:26.068][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:26.069][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:26.073][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:26.074][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:26.075][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:26.076][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:26.077][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:26.078][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:26.079][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:26.079][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:26.080][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:26.081][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:26.082][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:26.083][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:26.084][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:26.085][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:26.086][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:26.087][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:26.088][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:26.089][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:26.090][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:26.094][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:26.094][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:26.095][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:26.096][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:26.097][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:26.098][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:26.099][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:26.100][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:26.101][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:26.102][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:26.103][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:26.104][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:26.105][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:26.106][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:26.107][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:26.108][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:26.109][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:26.109][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:26.110][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:26.114][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:26.115][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:26.116][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:26.117][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:26.118][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:26.119][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:26.120][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:26.120][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:26.121][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:26.122][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:26.123][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:26.124][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:26.125][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:26.126][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:26.127][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:26.128][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:26.129][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:26.130][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:26.131][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:26.134][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:26.135][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:26.136][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:26.137][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:26.138][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:26.139][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:26.140][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:26.141][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:26.142][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:26.143][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:26.144][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:26.145][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:26.146][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:26.147][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:26.148][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:26.148][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:26.149][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:26.150][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:26.151][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:26.155][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:26.156][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:26.157][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:26.157][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:26.159][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:26.160][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:26.160][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:26.161][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:26.162][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:26.163][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:26.164][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:26.165][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:26.166][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:26.167][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:26.168][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:26.169][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:26.170][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:26.171][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:26.172][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:26.175][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:26.176][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:26.177][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:26.178][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:26.179][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:26.180][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:26.181][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:26.182][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:26.183][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:26.184][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:26.185][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:26.186][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:26.187][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:26.188][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:26.189][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:26.190][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:26.195][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-08-30 16:04:26.197][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:26.197][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:26.198][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:26.202][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:26.203][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:26.204][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:26.205][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:26.206][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:26.207][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:26.208][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:26.208][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:26.209][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:26.210][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:26.211][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:26.212][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:26.213][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:26.214][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:04:26.215][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:04:26.216][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:04:26.217][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:26.218][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:26.218][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:26.219][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:26.220][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:26.221][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:26.222][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:26.223][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:26.224][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:26.225][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:26.226][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:26.227][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:26.228][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:26.229][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:26.229][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:26.230][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-30 16:04:26.231][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:26.232][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:26.233][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:26.234][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:26.235][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:26.236][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:26.237][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:26.238][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:26.239][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:26.240][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:26.241][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:26.242][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:26.243][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4648].
biodb.DEBUG[2025-08-30 16:04:26.244][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:26.245][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:26.245][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:26.249][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:26.250][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:26.251][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:26.252][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:26.253][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:26.254][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:26.255][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:26.256][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:26.257][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:26.258][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:26.259][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:26.260][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:26.260][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:26.261][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:04:26.262][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:04:26.263][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:04:26.264][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:26.265][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:26.266][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:26.267][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:26.268][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:26.269][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:26.270][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:26.271][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:26.271][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:26.272][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:26.273][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:26.274][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:26.275][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:26.276][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:26.277][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:26.278][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-30 16:04:26.279][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:26.280][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:26.281][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:26.282][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:26.283][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:26.284][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:26.284][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:26.285][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:26.286][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:26.287][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:26.288][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:26.289][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:26.290][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-08-30 16:04:26.291][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:26.292][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:26.293][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:26.297][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:26.298][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:26.299][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:26.299][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:26.301][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:26.301][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:26.302][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:26.303][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:26.304][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:26.305][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:26.306][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:26.307][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:26.308][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:26.309][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:04:26.310][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:04:26.311][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:04:26.312][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:26.312][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:26.313][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:26.314][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:26.315][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:26.316][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:26.317][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:26.318][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:26.319][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:26.320][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:26.321][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:26.322][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:26.323][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:26.324][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:26.324][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:26.325][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-30 16:04:26.326][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:26.327][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:26.328][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:26.329][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:26.330][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:26.331][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:26.332][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:26.333][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:26.334][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:26.335][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:26.336][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:26.337][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:26.338][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [62447].
biodb.DEBUG[2025-08-30 16:04:26.339][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-08-30 16:04:26.340][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2025-08-30 16:04:26.342][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:26.343][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:26.343][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:26.347][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:26.348][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:26.349][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:26.350][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:04:26.352][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=480.2*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-08-30 16:04:26.355][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-08-30 16:04:26.357][cch$loadFileContent] Trying to load 1 files from cache: [1]: "20c224089a82bbffabd2e7dbc67cfae3".
biodb.TRACE[2025-08-30 16:04:26.358][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-08-30 16:04:26.359][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/20c224089a82bbffabd2e7dbc67cfae3.content".
biodb.DEBUG[2025-08-30 16:04:26.365][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:26.366][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:26.367][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:26.371][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:26.372][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:26.372][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:26.373][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:26.374][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:26.375][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:26.376][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:26.377][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:26.378][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:26.379][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:26.380][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:26.381][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:26.382][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:26.383][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:26.384][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:26.385][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:26.386][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:26.387][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:26.387][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:26.391][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:26.392][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:26.393][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:26.394][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:26.395][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:26.396][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:26.397][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:26.398][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:26.399][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:26.400][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:26.401][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:26.402][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:26.402][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:26.404][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:26.404][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:26.405][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:26.406][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:26.407][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:26.408][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:26.412][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:26.413][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:26.414][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:26.414][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:26.415][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:26.416][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:26.417][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:26.418][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:26.419][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:26.420][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:26.421][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:26.422][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:26.423][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:26.424][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:26.425][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:26.426][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:26.427][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:26.428][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:26.428][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:26.432][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:26.433][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:26.434][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:26.435][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:26.436][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:26.437][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:26.438][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:26.439][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:26.440][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:26.441][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:26.442][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:26.442][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:26.443][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:26.444][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:26.445][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:26.446][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:26.447][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:26.448][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:26.449][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:26.453][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:26.454][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:26.454][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:26.455][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:26.456][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:26.457][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:26.458][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:26.459][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:26.460][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:26.461][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:26.462][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:26.463][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:26.464][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:26.465][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:26.466][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:26.467][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:26.468][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:26.469][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:26.469][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:26.473][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:26.474][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:26.475][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:26.476][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:26.477][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:26.478][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:26.479][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:26.480][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:26.481][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:26.482][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:26.483][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:26.484][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:26.485][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:26.486][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:26.486][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:26.487][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:26.488][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:26.489][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:26.490][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:26.494][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:26.495][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:26.496][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:26.497][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:26.498][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:26.499][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:26.500][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:26.500][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:26.501][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:26.502][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:26.503][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:26.504][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:26.505][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:26.511][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:26.512][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:26.513][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:26.514][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:26.515][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:26.516][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:26.519][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:26.520][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:26.521][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:26.522][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:26.523][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:26.524][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:26.525][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:26.526][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:26.527][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:26.528][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:26.529][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:26.529][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:26.530][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:26.531][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:26.532][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:26.533][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:26.534][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:26.535][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:26.536][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:26.540][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:26.540][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:26.541][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:26.542][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:26.543][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:26.544][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:26.545][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:26.546][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:26.547][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:26.548][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:26.549][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:26.550][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:26.551][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:26.552][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:26.552][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:26.553][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:26.554][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:26.555][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:26.556][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:26.560][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:26.561][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:26.561][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:26.562][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:26.563][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:26.564][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:26.565][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:26.566][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:26.567][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:26.568][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:26.569][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:26.570][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:26.571][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:26.572][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:26.573][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:26.574][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:26.575][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:26.575][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:26.576][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:26.580][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:26.581][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:26.582][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:26.582][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:26.584][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:26.585][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:26.585][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:26.586][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:26.587][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:26.588][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:26.589][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:26.590][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:26.591][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:26.592][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:26.593][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:26.594][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:26.595][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:26.596][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:26.596][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:26.600][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:26.601][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:26.602][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:26.603][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:26.604][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:26.605][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:26.606][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:26.606][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:26.607][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:26.608][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:26.609][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:26.610][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:26.611][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:26.612][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:26.613][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:26.614][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:26.615][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:26.616][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:26.616][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:26.620][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:26.621][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:26.622][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:26.623][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:26.624][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:26.625][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:26.626][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:26.627][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:26.628][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:26.629][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:26.629][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:26.630][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:26.631][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:26.632][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:26.633][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:26.634][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:26.635][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:26.636][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:26.637][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:26.640][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:26.641][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:26.642][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:26.643][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:26.644][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:26.645][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:26.646][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:26.647][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:26.648][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:26.649][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:26.650][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:26.651][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:26.652][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:26.653][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:26.653][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:26.654][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:26.655][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:26.656][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:26.657][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:26.661][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:26.662][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:26.663][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:26.663][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:26.665][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:26.666][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:26.666][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:26.667][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:26.668][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:26.669][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:26.670][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:26.671][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:26.672][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:26.673][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:26.674][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:26.675][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:26.676][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:26.677][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:26.678][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:26.681][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:26.682][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:26.683][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:26.684][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:26.685][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:26.686][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:26.687][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:26.688][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:26.689][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:26.690][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:26.691][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:26.692][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:26.692][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:26.693][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:26.694][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:26.695][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:26.696][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:26.697][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:26.698][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:26.702][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:26.703][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:26.703][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:26.704][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:26.705][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:26.706][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:26.707][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:26.708][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:26.709][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:26.710][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:26.711][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:26.712][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:26.713][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:26.714][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:26.715][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:26.716][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:26.717][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:26.717][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:26.718][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:26.722][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:26.723][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:26.724][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:26.725][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:26.726][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:26.727][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:26.728][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:26.729][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:26.729][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:26.730][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:26.731][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:26.732][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:26.733][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:26.734][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:26.735][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:26.736][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:26.737][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:26.738][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:26.739][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:26.743][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:26.744][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:26.744][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:26.745][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:26.746][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:26.747][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:26.748][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:26.749][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:26.750][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:26.751][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:26.752][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:26.753][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:26.754][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:26.755][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:26.756][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:26.757][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:26.758][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:26.759][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:26.760][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:26.764][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:26.764][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:26.765][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:26.766][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:26.767][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:26.768][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:26.769][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:26.770][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:26.771][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:26.772][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:26.773][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:26.774][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:26.775][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:26.776][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:26.777][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:26.778][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:26.778][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:26.779][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:26.780][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:26.784][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:26.785][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:26.786][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:26.787][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:26.788][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:26.789][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:26.790][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:26.790][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:26.791][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:26.792][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:26.793][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:26.794][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:26.795][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:26.796][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:26.797][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:26.798][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:26.799][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:26.800][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:26.801][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:26.805][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:26.805][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:26.806][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:26.807][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:26.808][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:26.809][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:26.810][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:26.811][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:26.812][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:26.813][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:26.814][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:26.815][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:26.816][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:26.817][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:26.818][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:26.819][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:26.820][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:26.825][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:26.825][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:26.829][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:26.830][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:26.831][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:26.832][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:26.833][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:26.834][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:26.835][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:26.836][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:26.837][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:26.838][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:26.838][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:26.839][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:26.840][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:26.841][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:26.842][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:26.843][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:26.844][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:26.845][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:26.846][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:26.849][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:26.850][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:26.851][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:26.852][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:26.853][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:26.854][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:26.855][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:26.856][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:26.857][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:26.858][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:26.859][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:26.860][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:26.861][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:26.862][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:26.862][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:26.863][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:26.864][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:26.865][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:26.866][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:26.870][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:26.871][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:26.871][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:26.872][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:26.873][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:26.874][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:26.875][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:26.876][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:26.877][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:26.878][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:26.879][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:26.880][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:26.881][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:26.882][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:26.883][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:26.884][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:26.885][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:26.885][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:26.886][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:26.890][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:26.891][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:26.892][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:26.893][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:26.894][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:26.895][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:26.896][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:26.896][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:26.897][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:26.898][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:26.899][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:26.900][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:26.901][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:26.902][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:26.903][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:26.904][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:26.905][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:26.906][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:26.906][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:26.910][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:26.911][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:26.912][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:26.913][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:26.914][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:26.915][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:26.916][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:26.917][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:26.918][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:26.919][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:26.920][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:26.920][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:26.921][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:26.922][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:26.923][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:26.924][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:26.925][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:26.926][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:26.927][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:26.931][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:26.931][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:26.932][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:26.933][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:26.934][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:26.935][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:26.936][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:26.937][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:26.938][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:26.939][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:26.940][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:26.941][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:26.942][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:26.943][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:26.944][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:26.944][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:26.945][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:26.946][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:26.947][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:26.951][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:26.952][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:26.953][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:26.953][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:26.955][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:26.956][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:26.956][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:26.957][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:26.958][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:26.959][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:26.960][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:26.961][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:26.962][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:26.963][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:26.964][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:26.965][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:26.966][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:26.967][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:26.967][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:26.971][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:26.972][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:26.973][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:26.974][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:26.975][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:26.976][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:26.977][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:26.978][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:26.979][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:26.980][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:26.981][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:26.982][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:26.983][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:26.984][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:26.985][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:26.985][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:26.986][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-08-30 16:04:26.988][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:26.989][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:26.990][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:26.994][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:26.994][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:26.995][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:26.996][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:26.997][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:26.998][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:26.999][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:27.000][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:27.001][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:27.002][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:27.003][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:27.004][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:27.005][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:27.006][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:04:27.007][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:04:27.008][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:04:27.009][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:27.009][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:27.011][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:27.011][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:27.012][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:27.013][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:27.014][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:27.015][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:27.016][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:27.017][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:27.018][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:27.019][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:27.020][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:27.021][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:27.022][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:27.023][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-30 16:04:27.024][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:27.025][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:27.026][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:27.026][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:27.027][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:27.028][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:27.029][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:27.030][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:27.031][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:27.032][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:27.033][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:27.034][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:27.035][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4781].
biodb.DEBUG[2025-08-30 16:04:27.036][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:27.037][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:27.038][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:27.042][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:27.043][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:27.044][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:27.045][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:27.046][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:27.047][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:27.048][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:27.048][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:27.049][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:27.050][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:27.051][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:27.052][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:27.053][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:27.054][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:04:27.055][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:04:27.056][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:04:27.057][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:27.058][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:27.059][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:27.060][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:27.060][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:27.061][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:27.062][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:27.063][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:27.064][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:27.065][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:27.066][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:27.067][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:27.068][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:27.069][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:27.070][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:27.071][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-30 16:04:27.072][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:27.073][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:27.074][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:27.074][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:27.075][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:27.076][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:27.077][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:27.078][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:27.079][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:27.080][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:27.081][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:27.082][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:27.083][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [91601].
biodb.DEBUG[2025-08-30 16:04:27.084][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:27.085][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:27.086][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:27.090][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:27.091][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:27.092][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:27.092][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:27.094][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:27.095][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:27.096][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:27.096][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:27.097][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:27.098][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:27.099][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:27.100][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:27.101][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:27.102][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:04:27.103][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:04:27.104][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:04:27.105][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:27.106][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:27.107][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:27.108][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:27.108][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:27.109][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:27.110][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:27.111][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:27.112][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:27.113][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:27.114][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:27.115][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:27.116][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:27.117][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:27.118][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:27.119][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-30 16:04:27.120][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:27.121][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:27.122][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:27.123][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:27.124][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:27.125][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:27.125][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:27.126][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:27.127][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:27.128][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:27.129][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:27.130][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:27.131][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [95147].
biodb.DEBUG[2025-08-30 16:04:27.132][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-08-30 16:04:27.133][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2025-08-30 16:04:27.139][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:27.140][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:27.141][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:27.145][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:27.146][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:27.146][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:27.147][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:04:27.150][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.1*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-08-30 16:04:27.153][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-08-30 16:04:27.154][cch$loadFileContent] Trying to load 1 files from cache: [1]: "a035d13a630066423fab6713592c5e52".
biodb.TRACE[2025-08-30 16:04:27.155][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-08-30 16:04:27.156][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/a035d13a630066423fab6713592c5e52.content".
biodb.DEBUG[2025-08-30 16:04:27.162][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:27.162][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:27.163][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:27.167][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:27.168][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:27.169][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:27.170][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:27.171][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:27.172][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:27.173][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:27.174][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:27.174][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:27.175][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:27.176][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:27.177][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:27.178][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:27.179][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:27.180][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:27.181][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:27.182][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:27.183][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:27.184][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:27.187][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:27.188][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:27.189][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:27.190][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:27.191][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:27.192][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:27.193][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:27.194][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:27.195][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:27.196][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:27.197][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:27.198][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:27.198][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:27.199][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:27.200][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:27.201][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:27.202][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:27.203][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:27.204][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:27.208][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:27.209][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:27.209][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:27.210][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:27.211][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:27.212][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:27.213][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:27.214][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:27.215][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:27.216][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:27.217][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:27.218][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:27.219][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:27.220][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:27.221][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:27.222][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:27.223][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:27.223][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:27.224][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:27.228][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:27.229][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:27.230][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:27.231][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:27.232][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:27.233][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:27.233][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:27.234][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:27.235][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:27.236][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:27.237][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:27.238][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:27.239][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:27.240][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:27.241][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:27.242][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:27.243][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-08-30 16:04:27.244][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:27.245][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:27.246][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:27.250][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:27.251][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:27.251][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:27.252][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:27.253][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:27.254][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:27.255][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:27.256][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:27.257][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:27.258][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:27.259][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:27.260][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:27.262][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:27.264][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:04:27.265][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:04:27.266][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:04:27.267][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:27.268][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:27.269][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:27.270][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:27.271][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:27.272][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:27.273][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:27.274][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:27.275][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:27.276][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:27.277][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:27.278][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:27.279][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:27.279][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:27.280][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:27.281][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-30 16:04:27.282][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:27.283][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:27.284][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:27.285][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:27.286][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:27.287][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:27.288][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:27.289][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:27.290][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:27.291][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:27.292][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:27.293][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:27.294][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [636].
biodb.DEBUG[2025-08-30 16:04:27.295][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:27.296][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:27.297][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:27.301][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:27.302][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:27.303][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:27.304][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:27.305][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:27.306][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:27.307][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:27.308][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:27.309][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:27.310][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:27.311][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:27.312][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:27.313][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:27.313][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:04:27.314][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:04:27.315][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:04:27.316][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:27.317][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:27.318][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:27.319][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:27.320][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:27.321][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:27.322][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:27.323][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:27.324][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:27.325][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:27.326][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:27.327][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:27.328][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:27.329][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:27.329][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:27.330][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-30 16:04:27.331][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:27.332][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:27.333][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:27.334][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:27.335][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:27.336][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:27.337][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:27.338][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:27.339][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:27.340][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:27.341][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:27.342][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:27.343][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [3014].
biodb.DEBUG[2025-08-30 16:04:27.344][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:27.345][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:27.346][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:27.350][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:27.351][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:27.352][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:27.353][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:27.354][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:27.355][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:27.356][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:27.357][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:27.358][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:27.359][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:27.360][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:27.361][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:27.362][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:27.363][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:04:27.364][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:04:27.364][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:04:27.365][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:27.366][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:27.367][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:27.368][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:27.369][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:27.370][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:27.371][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:27.372][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:27.373][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:27.374][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:27.375][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:27.376][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:27.377][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:27.378][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:27.379][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:27.380][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-30 16:04:27.381][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:27.382][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:27.383][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:27.384][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:27.385][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:27.386][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:27.387][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:27.388][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:27.389][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:27.390][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:27.391][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:27.392][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:27.393][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [7799].
biodb.DEBUG[2025-08-30 16:04:27.394][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-08-30 16:04:27.395][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-08-30 16:04:27.410][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2025-08-30 16:04:27.411][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2025-08-30 16:04:27.411][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:27.412][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:27.413][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2025-08-30 16:04:27.414][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2025-08-30 16:04:27.415][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:27.416][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:27.417][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2025-08-30 16:04:27.418][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2025-08-30 16:04:27.419][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:27.420][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-08-30 16:04:27.424][biodb::testThat]
biodb.INFO [2025-08-30 16:04:27.425][biodb::testThat] Running test function  test_annotateMzValues_additional_fields  (" Additional fields are accepted in annotateMzValues() ").
biodb.INFO [2025-08-30 16:04:27.425][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-08-30 16:04:27.426][biodb::testThat]
biodb.TRACE[2025-08-30 16:04:27.429][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-08-30 16:04:27.430][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-08-30 16:04:27.431][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:27.432][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:27.433][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-08-30 16:04:27.434][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-08-30 16:04:27.435][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:27.436][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:27.437][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-08-30 16:04:27.438][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-08-30 16:04:27.439][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:27.439][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:27.440][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:27.441][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:27.442][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:27.443][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:27.444][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:27.445][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:27.446][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:27.447][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:27.448][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:27.449][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:27.450][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:27.451][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:27.452][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:27.453][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:27.454][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:27.455][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:27.460][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:27.462][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:27.463][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:27.463][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:27.464][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:27.465][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:27.466][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:27.467][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:27.468][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:27.469][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:27.470][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:27.471][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:27.472][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:27.473][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:27.474][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:27.475][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:27.476][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:27.477][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:27.477][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:27.478][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:27.479][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:27.480][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:27.481][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:27.482][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:27.483][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:27.484][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:27.485][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:27.486][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:27.487][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:27.488][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:27.489][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:27.490][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:27.493][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:27.494][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:27.494][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:27.498][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:27.499][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:27.500][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:27.501][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:04:27.503][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.72*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-08-30 16:04:27.506][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-08-30 16:04:27.507][cch$loadFileContent] Trying to load 1 files from cache: [1]: "dabc9e8530050c4ceebbaec76743bcf1".
biodb.TRACE[2025-08-30 16:04:27.509][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-08-30 16:04:27.510][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/dabc9e8530050c4ceebbaec76743bcf1.content".
biodb.DEBUG[2025-08-30 16:04:27.512][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:27.513][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:27.514][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:27.517][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:27.518][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:27.519][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:27.520][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:27.521][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:27.522][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:27.523][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:27.524][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:27.525][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:27.526][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:27.527][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:27.527][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:27.528][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:27.529][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:27.530][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:27.531][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:27.533][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.73*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-08-30 16:04:27.536][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-08-30 16:04:27.537][cch$loadFileContent] Trying to load 1 files from cache: [1]: "41b7f9723242a79cfe14bebd91dbb5b6".
biodb.TRACE[2025-08-30 16:04:27.538][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-08-30 16:04:27.539][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/41b7f9723242a79cfe14bebd91dbb5b6.content".
biodb.DEBUG[2025-08-30 16:04:27.541][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:27.542][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:27.543][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:27.547][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:27.548][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:27.548][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:27.549][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:27.550][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:27.551][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:27.552][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:27.553][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:27.554][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:27.555][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:27.556][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:27.557][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:27.558][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:27.559][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:27.560][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:27.561][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:27.562][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:27.562][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:27.563][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:27.567][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:27.568][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:27.569][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:27.570][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:27.571][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:27.572][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:27.573][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:27.574][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:27.575][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:27.576][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:27.576][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:27.577][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:27.578][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:27.579][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:27.580][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:27.581][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:27.582][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-08-30 16:04:27.584][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:27.584][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:27.585][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:27.589][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:27.590][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:27.591][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:27.592][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:27.593][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:27.594][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:27.595][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:27.596][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:27.597][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:27.598][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:27.598][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:27.599][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:27.600][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:27.601][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:27.602][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:27.603][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:27.604][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:27.605][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:27.606][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:27.607][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:27.608][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:27.609][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:27.610][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:27.611][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:27.612][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:27.613][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:27.614][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:27.614][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:27.615][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:27.616][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:27.617][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:27.618][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:27.619][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:27.620][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:27.621][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:27.622][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:27.623][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:27.624][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:27.625][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:27.626][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:27.627][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:27.628][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:27.629][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:27.630][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:27.630][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:27.631][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:27.632][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:27.633][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:27.634][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:27.635][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:27.636][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:27.637][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:27.638][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:27.639][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:27.640][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:27.641][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:27.642][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:27.643][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:27.644][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:27.645][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:27.646][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:27.647][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:27.647][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:27.648][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:27.649][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:27.650][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:27.651][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:27.652][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:27.653][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:27.654][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:27.655][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:27.656][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:27.657][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:27.658][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:27.659][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:27.660][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:27.661][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:04:27.662][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:27.663][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:27.663][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:27.664][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:04:27.665][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:27.666][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:27.667][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:27.668][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:27.669][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:27.670][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:27.671][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:27.672][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:27.673][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:27.674][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:27.675][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:27.676][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:27.677][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:27.678][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:27.679][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:27.679][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:27.680][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:27.681][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:27.682][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:27.683][private$selectFields] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2025-08-30 16:04:27.684][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:04:27.685][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:04:27.686][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:04:27.687][private$selectFields] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2025-08-30 16:04:27.688][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:27.689][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:27.690][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:27.691][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:27.691][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:27.692][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:27.693][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:27.694][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:27.695][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:27.696][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:27.697][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:27.698][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:27.699][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:27.700][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:27.701][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:27.702][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:27.703][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:27.704][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:27.705][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:27.705][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:27.706][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:27.707][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:27.708][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:27.709][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:27.710][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:27.711][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:27.712][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:27.713][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:27.714][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:27.715][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:27.716][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:27.717][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:27.718][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:27.719][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:27.719][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:27.720][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:27.721][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:04:27.722][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:27.723][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:27.724][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:27.725][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:27.726][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:27.727][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:27.728][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:27.729][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:27.730][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:27.731][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:27.732][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:27.732][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:27.733][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:27.734][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:27.735][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:27.736][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:27.737][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:27.738][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:27.739][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:27.740][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:27.741][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:27.742][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:27.743][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:27.744][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:27.745][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:27.746][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:27.747][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:27.747][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:27.748][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:27.749][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:27.750][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:27.751][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:27.752][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:27.753][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:27.754][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:27.755][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:27.756][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:27.757][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:27.758][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:27.759][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:27.760][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:27.761][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:27.761][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:27.762][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:27.763][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:27.764][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:27.765][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:27.766][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:04:27.767][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:27.768][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:27.769][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:27.770][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:27.771][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:27.772][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:27.777][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:27.778][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:27.779][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:27.780][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:27.781][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:27.782][private$selectFields] Fields [11]: "accession, charge, chebi.id, formula, inchi, inchikey, molecular.mass, monoisotopic.mass, n.stars, name, ..."
biodb.TRACE[2025-08-30 16:04:27.783][private$organizeFieldsByGroups] Fields [11]: "accession, charge, chebi.id, formula, inchi, inchikey, molecular.mass, monoisotopic.mass, n.stars, name, ..."
biodb.TRACE[2025-08-30 16:04:27.783][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:27.784][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:27.785][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:27.786][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:27.787][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:27.788][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:27.789][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:27.790][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:27.791][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:27.792][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:27.793][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:27.794][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:27.794][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:27.795][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:27.796][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:27.797][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:27.798][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:27.799][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:27.800][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:27.801][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:27.802][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:27.803][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:27.804][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:27.805][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:27.805][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:27.806][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:27.807][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:27.808][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:27.809][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:27.810][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:27.811][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:27.812][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:27.813][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:04:27.814][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:27.815][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:27.816][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:27.816][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:27.817][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:27.818][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:27.819][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:27.820][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:27.821][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:27.822][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:27.823][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:27.824][private$organizeFieldsByGroups] Groups [2]: "c("accession", "charge", "chebi.id", "formula", "inchi", "inchikey", "molecular.mass", "monoisotopic.mass", "n.stars", "name", "smiles"), list()"
biodb.TRACE[2025-08-30 16:04:27.825][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:27.826][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:27.827][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:27.828][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:27.829][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:27.830][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:27.830][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:27.831][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:27.832][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:27.833][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:27.834][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:27.835][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:27.836][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:27.837][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:27.838][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:27.839][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:27.840][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:27.841][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:27.842][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:27.843][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:27.844][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:27.845][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:27.845][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:27.846][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:27.847][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:27.848][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:27.849][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:27.850][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:27.851][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:27.852][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:27.853][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:27.854][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:27.855][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:27.856][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:27.857][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:27.858][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:27.859][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:27.860][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:27.861][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:27.861][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:27.862][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:27.863][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:27.864][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:27.865][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:27.866][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:27.867][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:27.868][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:27.869][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:27.870][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:27.871][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:27.872][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:27.873][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:27.874][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:27.875][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:27.876][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:27.876][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:27.877][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:27.878][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:27.879][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:27.880][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:27.881][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:27.882][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:27.883][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:27.884][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:27.885][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:27.886][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:27.887][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:27.888][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:27.889][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:27.890][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:27.890][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:27.891][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:27.892][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:27.893][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:27.894][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:27.895][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:27.896][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:27.897][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:27.898][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:27.899][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:27.900][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:27.901][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:27.902][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:27.903][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:27.904][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:27.905][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:27.906][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:27.907][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:27.908][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:27.909][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:27.909][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:27.910][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:27.911][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:27.912][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:27.913][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:27.914][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:27.915][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:04:27.916][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:27.917][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:27.918][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:27.919][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:04:27.920][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:27.921][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:27.922][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:27.923][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:04:27.924][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:27.925][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:27.926][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:27.927][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:27.928][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:27.929][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:27.929][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:27.930][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:27.931][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:27.932][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:27.933][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:27.934][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:27.935][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:27.936][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:27.937][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:27.938][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:27.939][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:27.940][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:27.941][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:27.942][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:27.943][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:27.944][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:27.945][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:27.946][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:27.947][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:27.948][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:27.948][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:27.956][private$entriesToListOfDataframes] Entry converted to data frame: [1, 11]: [accession, charge, chebi.id, formula, inchi, ...] [192288, 0, 192288, C27H54O2, InChI=1S/C27H54O2/c1-3-4-5-6-7-8-9-10-11-12-13-14-15-16-17-18-19-20-21-22-23-24-25-26-27(28)29-2/h3-26H2,1-2H3, ...].
biodb.DEBUG[2025-08-30 16:04:27.957][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:27.958][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:27.959][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:27.963][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:27.964][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:27.965][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:27.966][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:27.967][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:27.968][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:27.969][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:27.970][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:27.971][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:27.972][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:27.972][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:27.973][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:27.974][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:27.975][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:27.976][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:27.977][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:27.978][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:27.979][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:27.980][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:27.981][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:27.982][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:27.983][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:27.984][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:27.985][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:27.986][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:27.987][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:27.987][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:27.988][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:27.989][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:27.990][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:27.991][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:27.992][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:27.993][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:27.994][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:27.995][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:27.996][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:27.997][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:27.998][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:27.999][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:28.000][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:28.001][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:28.002][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:28.002][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:28.003][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:28.004][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:28.005][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:28.006][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:28.007][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:28.008][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:28.009][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:28.010][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:28.011][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:28.012][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:28.013][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:28.014][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:28.015][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:28.016][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:28.017][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:28.017][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:28.018][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:28.019][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:28.020][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:28.021][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:28.022][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:28.023][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:28.024][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:28.025][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:28.026][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:28.027][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:28.028][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:28.029][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:28.030][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:28.031][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:28.032][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:28.033][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:28.033][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:28.034][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:04:28.035][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:28.036][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:28.037][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:28.038][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:04:28.039][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:28.040][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:28.041][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:28.042][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:28.043][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:28.044][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:28.045][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:28.046][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:28.047][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:28.048][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:28.048][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:28.049][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:28.050][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:28.051][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:28.052][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:28.053][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:28.054][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:28.055][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:28.056][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:28.057][private$selectFields] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2025-08-30 16:04:28.058][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:04:28.059][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:04:28.060][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:04:28.061][private$selectFields] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2025-08-30 16:04:28.062][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:28.063][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:28.064][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:28.064][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:28.065][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:28.066][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:28.067][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:28.068][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:28.069][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:28.070][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:28.071][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:28.072][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:28.073][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:28.074][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:28.075][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:28.076][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:28.077][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:28.078][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:28.079][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:28.080][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:28.080][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:28.081][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:28.082][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:28.083][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:28.084][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:28.085][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:28.086][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:28.091][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:28.092][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:28.093][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:28.094][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:28.095][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:28.096][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:28.097][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:28.098][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:28.098][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:28.099][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:04:28.100][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:28.101][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:28.102][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:28.103][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:28.104][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:28.105][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:28.106][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:28.107][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:28.108][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:28.109][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:28.109][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:28.110][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:28.111][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:28.112][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:28.113][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:28.114][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:28.115][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:28.116][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:28.117][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:28.118][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:28.119][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:28.120][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:28.121][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:28.121][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:28.122][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:28.123][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:28.124][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:28.125][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:28.126][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:28.127][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:28.128][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:28.129][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:28.130][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:28.131][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:28.131][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:28.132][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:28.133][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:28.134][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:28.135][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:28.136][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:28.137][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:28.138][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:28.139][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:28.140][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:28.141][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:28.142][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:28.142][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:28.143][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:04:28.144][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:28.145][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:28.146][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:28.147][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:28.148][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:28.149][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:28.150][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:28.151][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:28.152][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:28.153][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:28.153][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:28.154][private$selectFields] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2025-08-30 16:04:28.155][private$organizeFieldsByGroups] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2025-08-30 16:04:28.156][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:28.157][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:28.158][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:28.159][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:28.160][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:28.161][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:28.162][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:28.163][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:28.164][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:28.165][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:28.165][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:28.166][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:28.167][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:28.168][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:28.169][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:28.170][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:28.171][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:28.172][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:28.173][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:28.174][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:28.175][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:28.176][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:28.177][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:28.177][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:28.178][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:28.179][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:28.180][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:28.181][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:28.182][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:28.183][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:28.184][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:28.185][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:28.186][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:28.187][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:28.187][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:28.188][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:28.189][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:04:28.190][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:28.191][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:28.192][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:28.193][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:28.194][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:28.195][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:28.196][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:28.197][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:28.198][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:28.198][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:28.199][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:28.200][private$organizeFieldsByGroups] Groups [2]: "c("accession", "charge", "chebi.id", "formula", "inchi", "inchikey", "kegg.compound.id", "molecular.mass", "monoisotopic.mass", "n.stars", "name", "smiles"), list()"
biodb.TRACE[2025-08-30 16:04:28.201][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:28.202][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:28.203][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:28.204][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:28.205][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:28.206][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:28.207][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:28.208][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:28.209][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:28.210][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:28.211][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:28.212][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:28.213][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:28.214][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:28.215][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:28.215][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:28.216][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:28.217][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:28.218][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:28.219][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:28.220][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:28.221][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:28.222][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:28.223][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:28.224][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:28.225][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:28.226][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:28.227][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:28.228][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:28.229][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:28.230][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:28.231][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:28.231][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:28.232][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:28.233][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:28.234][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:28.235][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:28.236][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:28.237][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:28.238][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:28.239][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:28.240][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:28.241][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:28.242][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:28.243][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:28.244][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:28.245][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:28.246][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:28.247][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:28.248][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:28.249][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:28.250][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:28.251][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:28.252][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:28.253][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:28.253][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:28.254][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:28.255][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:28.256][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:28.257][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:28.258][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:28.259][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:28.260][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:28.261][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:28.262][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:28.263][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:28.264][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:28.265][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:28.266][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:28.267][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:28.268][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:28.269][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:28.270][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:28.271][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:28.272][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:28.273][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:28.274][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:28.275][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:28.275][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:28.276][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:28.277][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:28.278][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:28.279][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:28.280][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:28.281][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:28.282][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:28.283][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:28.284][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:28.285][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:28.286][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:28.287][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:28.288][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:28.289][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:28.290][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:28.291][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:28.291][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:28.293][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:28.294][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:28.295][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:28.295][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:28.296][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:28.297][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:28.298][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:28.299][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:28.300][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:28.301][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:28.302][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:28.303][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:28.304][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:04:28.305][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:28.306][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:28.307][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:28.308][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:04:28.309][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:28.310][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:28.311][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:28.311][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:04:28.312][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:28.313][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:28.314][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:28.315][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:28.316][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:28.317][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:28.318][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:28.319][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:28.320][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:28.321][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:28.322][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:28.323][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:28.324][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:28.325][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:28.326][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:28.327][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:28.328][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:28.329][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:28.330][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:28.331][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:28.332][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:28.333][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:28.333][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:28.334][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:28.335][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:28.336][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:28.337][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:28.344][private$entriesToListOfDataframes] Entry converted to data frame: [1, 12]: [accession, charge, chebi.id, formula, inchi, ...] [15440, 0, 15440, C30H50, InChI=1S/C30H50/c1-25(2)15-11-19-29(7)23-13-21-27(5)17-9-10-18-28(6)22-14-24-30(8)20-12-16-26(3)4/h15-18,23-24H,9-14,19-22H2,1-8H3/b27-17+,28-18+,29-23+,30-24+, ...].
biodb.DEBUG[2025-08-30 16:04:28.345][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:28.346][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:28.346][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:28.351][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:28.352][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:28.352][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:28.353][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:28.354][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:28.355][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:28.356][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:28.357][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:28.358][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:28.359][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:28.360][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:28.361][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:28.362][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:28.363][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:28.364][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:28.365][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:28.366][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:28.367][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:28.368][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:28.368][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:28.369][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:28.370][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:28.371][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:28.372][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:28.373][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:28.374][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:28.375][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:28.376][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:28.377][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:28.378][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:28.379][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:28.380][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:28.381][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:28.382][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:28.383][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:28.384][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:28.385][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:28.386][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:28.386][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:28.387][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:28.388][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:28.389][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:28.390][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:28.391][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:28.392][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:28.393][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:28.394][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:28.395][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:28.396][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:28.397][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:28.398][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:28.403][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:28.404][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:28.405][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:28.405][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:28.406][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:28.407][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:28.408][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:28.409][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:28.410][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:28.411][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:28.412][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:28.413][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:28.414][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:28.415][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:28.416][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:28.417][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:28.417][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:28.418][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:28.419][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:28.420][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:28.421][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:28.422][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:28.423][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:28.424][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:28.425][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:28.426][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:04:28.427][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:28.428][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:28.429][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:28.430][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:04:28.431][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:28.431][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:28.432][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:28.433][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:28.434][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:28.435][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:28.436][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:28.437][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:28.438][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:28.439][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:28.440][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:28.441][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:28.442][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:28.443][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:28.443][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:28.444][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:28.445][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:28.446][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:28.447][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:28.448][private$selectFields] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2025-08-30 16:04:28.449][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:04:28.450][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:04:28.451][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:04:28.452][private$selectFields] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2025-08-30 16:04:28.453][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:28.454][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:28.454][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:28.455][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:28.456][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:28.457][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:28.458][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:28.459][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:28.460][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:28.461][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:28.462][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:28.463][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:28.464][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:28.465][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:28.466][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:28.466][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:28.467][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:28.468][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:28.469][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:28.470][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:28.471][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:28.472][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:28.473][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:28.474][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:28.475][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:28.476][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:28.477][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:28.478][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:28.478][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:28.479][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:28.480][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:28.481][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:28.482][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:28.483][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:28.484][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:28.485][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:28.486][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:04:28.487][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:28.488][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:28.489][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:28.490][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:28.490][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:28.491][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:28.492][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:28.493][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:28.494][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:28.495][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:28.496][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:28.497][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:28.498][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:28.499][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:28.500][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:28.501][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:28.502][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:28.502][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:28.503][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:28.504][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:28.505][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:28.506][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:28.507][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:28.508][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:28.509][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:28.510][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:28.511][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:28.512][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:28.513][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:28.514][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:28.514][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:28.515][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:28.516][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:28.517][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:28.518][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:28.519][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:28.520][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:28.521][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:28.522][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:28.523][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:28.524][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:28.525][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:28.526][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:28.526][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:28.527][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:28.528][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:28.529][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:28.530][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:04:28.531][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:28.532][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:28.533][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:28.534][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:28.535][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:28.536][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:28.537][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:28.538][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:28.539][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:28.540][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:28.540][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:28.541][private$selectFields] Fields [11]: "accession, charge, chebi.id, formula, inchi, inchikey, molecular.mass, monoisotopic.mass, n.stars, name, ..."
biodb.TRACE[2025-08-30 16:04:28.542][private$organizeFieldsByGroups] Fields [11]: "accession, charge, chebi.id, formula, inchi, inchikey, molecular.mass, monoisotopic.mass, n.stars, name, ..."
biodb.TRACE[2025-08-30 16:04:28.543][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:28.544][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:28.545][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:28.546][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:28.547][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:28.548][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:28.549][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:28.550][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:28.551][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:28.552][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:28.553][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:28.554][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:28.555][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:28.556][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:28.556][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:28.557][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:28.558][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:28.559][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:28.560][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:28.561][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:28.562][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:28.563][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:28.564][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:28.565][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:28.566][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:28.567][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:28.568][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:28.569][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:28.570][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:28.571][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:28.571][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:28.572][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:28.573][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:04:28.574][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:28.575][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:28.576][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:28.577][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:28.578][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:28.579][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:28.580][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:28.581][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:28.582][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:28.583][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:28.584][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:28.584][private$organizeFieldsByGroups] Groups [2]: "c("accession", "charge", "chebi.id", "formula", "inchi", "inchikey", "molecular.mass", "monoisotopic.mass", "n.stars", "name", "smiles"), list()"
biodb.TRACE[2025-08-30 16:04:28.585][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:28.587][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:28.587][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:28.588][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:28.589][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:28.590][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:28.591][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:28.592][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:28.593][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:28.594][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:28.595][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:28.596][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:28.597][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:28.598][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:28.599][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:28.600][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:28.601][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:28.602][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:28.603][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:28.604][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:28.604][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:28.606][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:28.606][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:28.607][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:28.608][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:28.609][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:28.610][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:28.611][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:28.612][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:28.613][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:28.614][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:28.615][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:28.616][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:28.617][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:28.618][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:28.619][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:28.620][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:28.621][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:28.622][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:28.623][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:28.624][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:28.625][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:28.625][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:28.626][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:28.627][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:28.628][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:28.629][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:28.630][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:28.631][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:28.632][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:28.633][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:28.634][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:28.635][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:28.636][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:28.637][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:28.638][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:28.639][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:28.640][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:28.641][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:28.642][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:28.643][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:28.644][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:28.645][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:28.645][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:28.646][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:28.647][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:28.648][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:28.649][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:28.650][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:28.651][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:28.652][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:28.653][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:28.654][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:28.655][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:28.656][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:28.657][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:28.658][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:28.659][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:28.660][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:28.661][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:28.662][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:28.663][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:28.664][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:28.664][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:28.666][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:28.667][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:28.667][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:28.668][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:28.669][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:28.670][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:28.671][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:28.672][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:28.673][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:28.674][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:28.675][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:28.676][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:28.677][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:04:28.678][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:28.679][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:28.680][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:28.681][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:04:28.682][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:28.683][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:28.684][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:28.684][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:04:28.685][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:28.686][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:28.687][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:28.688][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:28.689][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:28.690][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:28.691][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:28.692][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:28.693][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:28.694][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:28.695][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:28.696][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:28.697][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:28.698][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:28.699][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:28.700][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:28.701][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:28.702][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:28.703][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:28.704][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:28.705][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:28.706][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:28.706][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:28.707][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:28.708][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:28.709][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:28.710][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:28.725][private$entriesToListOfDataframes] Entry converted to data frame: [1, 11]: [accession, charge, chebi.id, formula, inchi, ...] [209892, 0, 209892, C30H50, InChI=1S/C30H50/c1-21(2)11-9-12-22(3)23-15-19-30(8)25-13-14-26-27(4,5)17-10-18-28(26,6)24(25)16-20-29(23,30)7/h11,13,22-24,26H,9-10,12,14-20H2,1-8H3/t22-,23+,24+,26+,28-,29+,30-/m1/s1, ...].
biodb.DEBUG[2025-08-30 16:04:28.726][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-08-30 16:04:28.727][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2025-08-30 16:04:28.730][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:28.731][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:28.732][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:28.736][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:28.737][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:28.738][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:28.738][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:04:28.741][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=480.62*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-08-30 16:04:28.744][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-08-30 16:04:28.745][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b3cd8ddf08f509014f10dc9bf7c1649d".
biodb.TRACE[2025-08-30 16:04:28.746][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-08-30 16:04:28.747][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b3cd8ddf08f509014f10dc9bf7c1649d.content".
biodb.DEBUG[2025-08-30 16:04:28.749][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:28.750][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:28.751][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:28.755][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:28.756][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:28.757][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:28.758][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:28.759][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:28.760][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:28.761][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:28.761][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:28.762][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:28.763][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:28.764][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:28.765][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:28.766][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:28.767][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:28.768][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:28.769][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:28.770][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:28.771][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:28.772][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:28.776][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:28.776][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:28.777][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:28.778][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:28.779][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:28.780][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:28.781][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:28.782][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:28.783][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:28.784][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:28.785][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:28.786][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:28.787][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:28.788][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:28.789][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:28.789][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:28.791][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=480.63*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-08-30 16:04:28.794][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-08-30 16:04:28.795][cch$loadFileContent] Trying to load 1 files from cache: [1]: "831507e33c6cf42061851262412f5feb".
biodb.TRACE[2025-08-30 16:04:28.796][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-08-30 16:04:28.798][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/831507e33c6cf42061851262412f5feb.content".
biodb.DEBUG[2025-08-30 16:04:28.800][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:28.801][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:28.802][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:28.806][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:28.806][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:28.807][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:28.808][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:28.809][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:28.810][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:28.811][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:28.812][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:28.813][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:28.814][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:28.815][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:28.816][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:28.817][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:28.818][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:28.819][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:28.819][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:28.820][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:28.821][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:28.822][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:28.826][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:28.827][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:28.828][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:28.828][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:28.830][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:28.831][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:28.831][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:28.832][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:28.833][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:28.834][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:28.835][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:28.836][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:28.837][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:28.838][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:28.839][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:28.840][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:28.841][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:28.842][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:28.842][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:28.846][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:28.847][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:28.848][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:28.849][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:28.850][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:28.851][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:28.852][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:28.853][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:28.854][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:28.855][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:28.856][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:28.856][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:28.857][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:28.858][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:28.859][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:28.860][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:28.861][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-08-30 16:04:28.863][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:28.864][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:28.864][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:28.868][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:28.869][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:28.870][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:28.871][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:28.872][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:28.873][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:28.874][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:28.875][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:28.876][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:28.877][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:28.878][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:28.879][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:28.880][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:28.881][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:28.882][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:28.882][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:28.883][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:28.884][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:28.885][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:28.886][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:28.887][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:28.888][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:28.889][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:28.890][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:28.891][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:28.892][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:28.893][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:28.894][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:28.895][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:28.896][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:28.897][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:28.898][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:28.899][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:28.900][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:28.900][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:28.901][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:28.902][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:28.903][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:28.904][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:28.905][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:28.906][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:28.907][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:28.908][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:28.909][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:28.910][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:28.911][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:28.912][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:28.913][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:28.914][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:28.915][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:28.916][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:28.916][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:28.917][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:28.918][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:28.919][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:28.920][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:28.921][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:28.922][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:28.923][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:28.924][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:28.925][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:28.926][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:28.927][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:28.928][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:28.929][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:28.930][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:28.931][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:28.932][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:28.933][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:28.934][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:28.934][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:28.935][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:28.936][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:28.937][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:28.938][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:28.939][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:28.940][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:04:28.941][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:28.942][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:28.943][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:28.944][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:04:28.945][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:28.946][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:28.947][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:28.948][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:28.949][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:28.949][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:28.950][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:28.951][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:28.952][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:28.953][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:28.954][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:28.955][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:28.956][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:28.957][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:28.958][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:28.959][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:28.960][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:28.961][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:28.962][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:28.963][private$selectFields] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2025-08-30 16:04:28.963][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:04:28.964][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:04:28.965][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:04:28.966][private$selectFields] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2025-08-30 16:04:28.967][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:28.968][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:28.969][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:28.970][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:28.971][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:28.972][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:28.973][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:28.974][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:28.975][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:28.976][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:28.976][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:28.977][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:28.978][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:28.979][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:28.980][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:28.981][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:28.982][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:28.983][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:28.984][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:28.985][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:28.986][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:28.987][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:28.988][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:28.989][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:28.989][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:28.990][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:28.991][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:28.992][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:28.993][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:28.994][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:28.995][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:28.996][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:28.997][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:28.998][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:28.999][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:29.000][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:29.001][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:04:29.002][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:29.003][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:29.003][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:29.004][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:29.005][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:29.006][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:29.007][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:29.008][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:29.009][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:29.010][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:29.011][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:29.012][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:29.013][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:29.014][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:29.015][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:29.016][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:29.017][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:29.018][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:29.018][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:29.019][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:29.020][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:29.021][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:29.022][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:29.023][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:29.024][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:29.025][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:29.026][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:29.027][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:29.028][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:29.029][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:29.030][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:29.031][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:29.032][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:29.037][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:29.038][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:29.039][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:29.040][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:29.041][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:29.042][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:29.043][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:29.044][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:29.045][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:29.046][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:29.047][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:29.048][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:29.048][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:29.049][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:29.050][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:04:29.051][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:29.052][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:29.053][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:29.054][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:29.055][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:29.056][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:29.057][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:29.058][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:29.059][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:29.059][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:29.060][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:29.061][private$selectFields] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2025-08-30 16:04:29.062][private$organizeFieldsByGroups] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2025-08-30 16:04:29.063][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:29.064][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:29.065][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:29.066][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:29.067][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:29.068][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:29.069][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:29.070][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:29.071][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:29.072][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:29.072][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:29.073][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:29.074][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:29.075][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:29.076][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:29.077][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:29.078][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:29.079][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:29.080][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:29.081][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:29.081][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:29.082][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:29.083][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:29.084][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:29.085][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:29.086][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:29.087][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:29.088][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:29.089][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:29.090][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:29.091][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:29.092][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:29.092][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:29.093][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:29.094][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:29.095][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:29.096][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:04:29.097][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:29.098][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:29.099][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:29.100][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:29.101][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:29.102][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:29.103][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:29.103][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:29.104][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:29.105][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:29.106][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:29.107][private$organizeFieldsByGroups] Groups [2]: "c("accession", "charge", "chebi.id", "formula", "inchi", "inchikey", "kegg.compound.id", "molecular.mass", "monoisotopic.mass", "n.stars", "name", "smiles"), list()"
biodb.TRACE[2025-08-30 16:04:29.108][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:29.109][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:29.110][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:29.111][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:29.112][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:29.113][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:29.114][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:29.115][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:29.116][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:29.117][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:29.118][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:29.118][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:29.120][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:29.121][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:29.121][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:29.122][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:29.123][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:29.124][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:29.125][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:29.126][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:29.127][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:29.128][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:29.129][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:29.130][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:29.131][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:29.132][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:29.133][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:29.134][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:29.135][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:29.136][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:29.136][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:29.137][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:29.138][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:29.139][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:29.140][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:29.141][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:29.142][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:29.143][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:29.144][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:29.145][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:29.146][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:29.147][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:29.148][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:29.149][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:29.150][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:29.151][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:29.151][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:29.152][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:29.153][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:29.154][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:29.155][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:29.156][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:29.157][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:29.158][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:29.159][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:29.160][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:29.161][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:29.162][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:29.163][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:29.164][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:29.165][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:29.166][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:29.167][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:29.168][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:29.168][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:29.169][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:29.170][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:29.171][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:29.172][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:29.173][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:29.174][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:29.175][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:29.176][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:29.177][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:29.178][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:29.179][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:29.180][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:29.181][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:29.182][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:29.183][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:29.184][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:29.185][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:29.186][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:29.186][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:29.188][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:29.189][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:29.189][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:29.190][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:29.191][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:29.192][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:29.193][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:29.194][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:29.195][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:29.196][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:29.197][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:29.198][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:29.199][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:29.200][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:29.201][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:29.202][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:29.203][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:29.204][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:29.205][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:29.206][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:29.207][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:29.208][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:29.209][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:29.209][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:29.211][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:04:29.212][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:29.213][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:29.213][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:29.214][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:04:29.215][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:29.216][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:29.217][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:29.218][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:04:29.219][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:29.220][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:29.221][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:29.222][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:29.223][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:29.224][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:29.225][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:29.226][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:29.227][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:29.228][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:29.229][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:29.230][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:29.231][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:29.232][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:29.232][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:29.234][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:29.235][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:29.235][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:29.236][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:29.237][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:29.238][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:29.239][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:29.240][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:29.241][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:29.242][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:29.243][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:29.244][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:29.251][private$entriesToListOfDataframes] Entry converted to data frame: [1, 12]: [accession, charge, chebi.id, formula, inchi, ...] [4781, 0, 4781, C29H40N2O4, InChI=1S/C29H40N2O4/c1-6-18-17-31-10-8-20-14-27(33-3)29(35-5)16-23(20)25(31)12-21(18)11-24-22-15-28(34-4)26(32-2)13-19(22)7-9-30-24/h13-16,18,21,24-25,30H,6-12,17H2,1-5H3/t18-,21-,24+,25-/m0/s1, ...].
biodb.DEBUG[2025-08-30 16:04:29.252][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:29.252][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:29.253][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:29.257][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:29.258][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:29.259][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:29.260][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:29.261][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:29.262][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:29.263][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:29.264][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:29.265][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:29.266][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:29.267][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:29.268][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:29.269][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:29.270][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:29.271][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:29.272][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:29.272][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:29.273][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:29.274][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:29.275][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:29.276][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:29.277][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:29.278][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:29.279][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:29.280][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:29.281][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:29.282][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:29.283][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:29.284][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:29.285][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:29.286][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:29.287][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:29.288][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:29.289][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:29.289][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:29.290][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:29.291][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:29.292][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:29.293][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:29.294][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:29.295][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:29.296][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:29.297][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:29.298][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:29.299][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:29.300][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:29.301][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:29.302][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:29.303][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:29.304][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:29.305][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:29.305][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:29.306][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:29.307][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:29.308][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:29.309][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:29.310][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:29.311][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:29.312][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:29.313][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:29.314][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:29.315][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:29.316][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:29.317][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:29.318][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:29.319][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:29.320][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:29.321][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:29.321][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:29.322][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:29.323][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:29.324][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:29.325][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:29.326][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:29.327][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:29.328][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:29.329][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:04:29.330][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:29.331][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:29.332][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:29.333][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:04:29.334][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:29.335][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:29.336][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:29.337][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:29.338][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:29.338][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:29.339][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:29.340][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:29.341][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:29.342][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:29.343][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:29.344][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:29.345][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:29.346][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:29.347][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:29.348][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:29.353][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:29.354][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:29.355][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:29.356][private$selectFields] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2025-08-30 16:04:29.357][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:04:29.358][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:04:29.359][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:04:29.360][private$selectFields] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2025-08-30 16:04:29.361][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:29.362][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:29.363][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:29.363][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:29.364][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:29.365][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:29.366][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:29.367][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:29.368][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:29.369][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:29.370][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:29.371][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:29.372][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:29.373][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:29.374][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:29.374][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:29.375][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:29.376][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:29.377][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:29.378][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:29.379][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:29.380][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:29.381][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:29.382][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:29.383][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:29.384][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:29.385][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:29.385][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:29.386][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:29.387][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:29.388][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:29.389][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:29.390][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:29.391][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:29.392][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:29.393][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:29.394][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:04:29.395][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:29.396][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:29.396][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:29.397][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:29.398][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:29.399][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:29.400][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:29.401][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:29.402][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:29.403][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:29.404][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:29.405][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:29.406][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:29.407][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:29.408][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:29.408][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:29.409][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:29.410][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:29.411][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:29.412][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:29.413][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:29.414][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:29.415][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:29.416][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:29.417][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:29.418][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:29.419][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:29.419][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:29.420][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:29.421][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:29.422][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:29.423][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:29.424][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:29.425][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:29.426][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:29.427][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:29.428][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:29.429][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:29.430][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:29.430][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:29.431][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:29.432][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:29.433][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:29.434][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:29.435][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:29.436][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:29.437][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:29.438][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:04:29.439][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:29.440][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:29.441][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:29.442][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:29.443][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:29.443][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:29.444][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:29.445][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:29.446][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:29.447][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:29.448][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:29.449][private$selectFields] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2025-08-30 16:04:29.450][private$organizeFieldsByGroups] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2025-08-30 16:04:29.451][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:29.452][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:29.453][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:29.454][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:29.454][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:29.455][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:29.456][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:29.457][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:29.458][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:29.459][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:29.460][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:29.461][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:29.462][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:29.463][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:29.464][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:29.465][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:29.466][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:29.467][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:29.467][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:29.468][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:29.469][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:29.470][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:29.471][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:29.472][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:29.473][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:29.474][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:29.475][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:29.476][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:29.477][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:29.478][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:29.479][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:29.479][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:29.480][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:29.481][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:29.482][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:29.483][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:29.484][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:04:29.485][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:29.486][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:29.487][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:29.488][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:29.489][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:29.490][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:29.490][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:29.491][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:29.492][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:29.493][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:29.494][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:29.495][private$organizeFieldsByGroups] Groups [2]: "c("accession", "charge", "chebi.id", "formula", "inchi", "inchikey", "kegg.compound.id", "molecular.mass", "monoisotopic.mass", "n.stars", "name", "smiles"), list()"
biodb.TRACE[2025-08-30 16:04:29.496][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:29.497][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:29.498][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:29.499][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:29.500][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:29.501][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:29.502][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:29.503][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:29.504][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:29.505][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:29.506][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:29.507][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:29.508][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:29.509][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:29.510][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:29.511][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:29.511][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:29.512][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:29.513][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:29.514][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:29.515][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:29.516][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:29.517][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:29.518][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:29.519][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:29.520][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:29.521][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:29.522][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:29.523][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:29.524][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:29.525][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:29.526][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:29.527][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:29.528][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:29.529][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:29.530][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:29.531][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:29.532][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:29.533][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:29.533][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:29.534][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:29.535][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:29.536][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:29.537][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:29.538][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:29.539][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:29.540][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:29.541][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:29.542][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:29.543][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:29.544][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:29.545][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:29.546][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:29.547][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:29.548][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:29.549][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:29.550][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:29.551][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:29.551][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:29.552][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:29.553][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:29.554][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:29.555][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:29.556][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:29.557][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:29.558][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:29.559][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:29.560][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:29.561][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:29.562][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:29.563][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:29.564][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:29.565][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:29.566][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:29.567][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:29.568][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:29.569][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:29.570][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:29.571][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:29.571][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:29.572][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:29.573][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:29.574][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:29.575][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:29.576][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:29.577][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:29.578][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:29.579][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:29.580][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:29.581][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:29.582][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:29.583][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:29.584][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:29.585][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:29.586][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:29.587][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:29.588][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:29.589][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:29.590][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:29.590][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:29.591][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:29.592][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:29.593][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:29.594][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:29.595][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:29.596][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:29.597][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:29.598][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:29.599][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:04:29.600][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:29.601][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:29.602][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:29.603][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:04:29.604][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:29.605][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:29.606][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:29.607][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:04:29.608][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:29.609][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:29.610][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:29.611][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:29.612][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:29.613][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:29.613][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:29.614][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:29.615][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:29.616][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:29.617][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:29.618][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:29.619][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:29.620][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:29.621][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:29.622][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:29.623][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:29.624][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:29.625][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:29.626][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:29.627][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:29.628][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:29.629][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:29.630][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:29.631][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:29.632][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:29.632][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:29.639][private$entriesToListOfDataframes] Entry converted to data frame: [1, 12]: [accession, charge, chebi.id, formula, inchi, ...] [16587, 0, 16587, C27H44O7, InChI=1S/C27H44O7/c1-23(2,32)9-8-22(31)26(5,33)21-7-11-27(34)16-12-18(28)17-13-19(29)20(30)14-24(17,3)15(16)6-10-25(21,27)4/h12,15,17,19-22,29-34H,6-11,13-14H2,1-5H3/t15-,17-,19+,20-,21-,22+,24+,25+,26+,27+/m0/s1, ...].
biodb.DEBUG[2025-08-30 16:04:29.640][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:29.641][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:29.642][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:29.646][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:29.647][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:29.648][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:29.649][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:29.650][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:29.651][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:29.652][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:29.653][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:29.653][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:29.654][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:29.655][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:29.656][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:29.657][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:29.658][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:29.659][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:29.660][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:29.661][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:29.662][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:29.663][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:29.668][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:29.669][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:29.670][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:29.671][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:29.672][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:29.673][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:29.674][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:29.675][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:29.676][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:29.677][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:29.678][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:29.679][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:29.680][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:29.680][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:29.681][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:29.682][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:29.683][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:29.684][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:29.685][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:29.686][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:29.687][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:29.688][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:29.689][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:29.690][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:29.691][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:29.692][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:29.693][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:29.694][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:29.694][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:29.695][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:29.696][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:29.697][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:29.698][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:29.699][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:29.700][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:29.701][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:29.702][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:29.703][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:29.704][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:29.705][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:29.706][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:29.706][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:29.707][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:29.708][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:29.709][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:29.710][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:29.711][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:29.712][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:29.713][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:29.714][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:29.715][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:29.716][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:29.717][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:29.718][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:29.719][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:29.719][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:29.720][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:29.721][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:04:29.722][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:29.723][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:29.724][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:29.725][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:04:29.726][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:29.727][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:29.728][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:29.729][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:29.730][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:29.731][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:29.732][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:29.732][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:29.733][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:29.734][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:29.735][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:29.736][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:29.737][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:29.738][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:29.739][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:29.740][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:29.741][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:29.742][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:29.743][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:29.744][private$selectFields] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2025-08-30 16:04:29.745][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:04:29.745][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:04:29.746][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:04:29.747][private$selectFields] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2025-08-30 16:04:29.748][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:29.749][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:29.750][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:29.751][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:29.752][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:29.753][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:29.754][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:29.755][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:29.756][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:29.757][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:29.757][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:29.758][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:29.759][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:29.760][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:29.761][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:29.762][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:29.763][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:29.764][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:29.765][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:29.766][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:29.767][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:29.768][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:29.768][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:29.769][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:29.770][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:29.771][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:29.772][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:29.773][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:29.774][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:29.775][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:29.776][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:29.777][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:29.778][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:29.779][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:29.780][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:29.780][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:29.781][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:04:29.782][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:29.783][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:29.784][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:29.785][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:29.786][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:29.787][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:29.788][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:29.789][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:29.790][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:29.791][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:29.791][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:29.792][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:29.793][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:29.794][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:29.795][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:29.796][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:29.797][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:29.798][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:29.799][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:29.800][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:29.801][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:29.802][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:29.803][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:29.803][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:29.804][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:29.805][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:29.806][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:29.807][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:29.808][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:29.809][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:29.810][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:29.811][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:29.812][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:29.813][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:29.814][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:29.815][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:29.816][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:29.817][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:29.817][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:29.818][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:29.819][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:29.820][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:29.821][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:29.822][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:29.823][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:29.824][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:29.825][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:29.826][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:04:29.827][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:29.828][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:29.829][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:29.830][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:29.831][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:29.832][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:29.832][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:29.833][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:29.834][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:29.835][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:29.836][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:29.837][private$selectFields] Fields [11]: "accession, charge, chebi.id, formula, inchi, inchikey, molecular.mass, monoisotopic.mass, n.stars, name, ..."
biodb.TRACE[2025-08-30 16:04:29.838][private$organizeFieldsByGroups] Fields [11]: "accession, charge, chebi.id, formula, inchi, inchikey, molecular.mass, monoisotopic.mass, n.stars, name, ..."
biodb.TRACE[2025-08-30 16:04:29.839][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:29.840][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:29.841][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:29.842][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:29.843][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:29.844][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:29.845][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:29.846][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:29.846][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:29.847][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:29.848][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:29.849][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:29.850][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:29.851][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:29.852][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:29.853][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:29.854][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:29.855][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:29.856][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:29.857][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:29.858][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:29.859][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:29.860][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:29.860][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:29.861][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:29.862][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:29.863][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:29.864][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:29.865][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:29.866][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:29.867][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:29.868][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:29.869][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:04:29.870][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:29.871][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:29.872][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:29.873][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:29.873][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:29.874][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:29.875][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:29.876][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:29.877][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:29.878][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:29.879][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:29.880][private$organizeFieldsByGroups] Groups [2]: "c("accession", "charge", "chebi.id", "formula", "inchi", "inchikey", "molecular.mass", "monoisotopic.mass", "n.stars", "name", "smiles"), list()"
biodb.TRACE[2025-08-30 16:04:29.881][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:29.882][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:29.883][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:29.884][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:29.885][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:29.886][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:29.887][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:29.888][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:29.888][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:29.889][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:29.890][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:29.891][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:29.892][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:29.893][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:29.894][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:29.895][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:29.896][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:29.897][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:29.898][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:29.899][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:29.900][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:29.901][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:29.902][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:29.903][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:29.904][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:29.905][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:29.906][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:29.907][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:29.908][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:29.909][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:29.909][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:29.910][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:29.911][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:29.912][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:29.913][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:29.914][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:29.915][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:29.916][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:29.917][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:29.918][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:29.919][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:29.920][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:29.921][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:29.922][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:29.923][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:29.924][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:29.925][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:29.926][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:29.927][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:29.928][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:29.929][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:29.929][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:29.930][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:29.931][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:29.932][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:29.933][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:29.934][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:29.935][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:29.936][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:29.937][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:29.938][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:29.939][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:29.940][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:29.941][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:29.942][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:29.943][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:29.944][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:29.945][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:29.946][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:29.947][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:29.947][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:29.948][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:29.949][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:29.950][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:29.951][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:29.952][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:29.953][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:29.954][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:29.955][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:29.956][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:29.957][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:29.958][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:29.959][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:29.960][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:29.961][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:29.962][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:29.963][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:29.964][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:29.965][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:29.966][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:29.967][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:29.967][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:29.968][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:29.969][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:29.970][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:29.971][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:29.972][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:04:29.973][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:29.974][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:29.975][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:29.976][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:04:29.977][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:29.978][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:29.983][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:29.984][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:04:29.985][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:29.986][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:29.987][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:29.988][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:29.989][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:29.990][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:29.991][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:29.992][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:29.993][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:29.994][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:29.995][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:29.996][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:29.997][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:29.998][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:29.998][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:29.999][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:30.000][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:30.001][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:30.002][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:30.003][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:30.004][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:30.005][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:30.006][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:30.007][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:30.008][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:30.009][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:30.010][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:30.016][private$entriesToListOfDataframes] Entry converted to data frame: [1, 11]: [accession, charge, chebi.id, formula, inchi, ...] [19804, 0, 19804, C27H44O7, InChI=1S/C27H44O7/c1-23(2,32)8-5-9-26(33,15-28)22-7-11-27(34)17-12-19(29)18-13-20(30)21(31)14-24(18,3)16(17)6-10-25(22,27)4/h12,16,18,20-22,28,30-34H,5-11,13-15H2,1-4H3/t16-,18-,20+,21-,22-,24+,25+,26+,27+/m0/s1, ...].
biodb.DEBUG[2025-08-30 16:04:30.017][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-08-30 16:04:30.018][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2025-08-30 16:04:30.020][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:30.021][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:30.022][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:30.026][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:30.027][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:30.028][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:30.029][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:04:30.031][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.38*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-08-30 16:04:30.034][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-08-30 16:04:30.035][cch$loadFileContent] Trying to load 1 files from cache: [1]: "26d0872875c47c33e8205aa7124e0486".
biodb.TRACE[2025-08-30 16:04:30.036][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-08-30 16:04:30.038][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/26d0872875c47c33e8205aa7124e0486.content".
biodb.DEBUG[2025-08-30 16:04:30.040][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:30.041][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:30.042][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:30.046][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:30.047][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:30.047][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:30.048][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:30.049][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:30.050][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:30.051][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:30.052][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:30.053][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:30.054][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:30.055][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:30.056][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:30.057][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:30.058][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:30.059][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:30.060][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:30.061][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:30.061][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:30.062][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:30.066][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:30.067][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:30.068][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:30.069][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:30.070][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:30.071][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:30.072][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:30.073][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:30.073][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:30.074][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:30.075][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:30.076][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:30.077][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:30.078][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:30.079][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:30.080][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:30.081][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:30.082][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:30.083][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:30.086][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:30.087][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:30.088][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:30.089][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:30.090][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:30.091][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:30.092][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:30.093][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:30.094][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:30.095][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:30.096][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:30.097][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:30.098][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:30.099][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:30.099][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:30.100][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:30.101][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:30.102][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:30.103][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:30.107][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:30.108][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:30.109][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:30.109][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:30.110][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:30.111][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:30.112][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:30.113][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:30.114][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:30.115][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:30.116][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:30.117][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:30.118][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:30.119][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:30.120][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:30.121][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:30.122][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:30.123][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:30.123][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:30.127][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:30.128][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:30.129][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:30.130][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:30.131][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:30.132][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:30.133][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:30.134][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:30.135][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:30.136][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:30.137][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:30.138][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:30.138][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:30.140][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:30.140][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:30.141][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:30.142][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:30.143][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:30.144][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:30.148][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:30.149][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:30.150][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:30.150][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:30.152][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:30.153][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:30.153][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:30.154][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:30.155][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:30.156][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:30.157][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:30.158][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:30.159][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:30.160][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:30.161][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:30.162][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:30.163][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:30.164][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:30.165][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:30.168][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:30.169][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:30.170][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:30.171][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:30.172][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:30.173][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:30.174][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:30.175][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:30.176][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:30.177][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:30.178][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:30.179][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:30.180][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:30.181][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:30.182][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:30.182][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:30.183][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:30.184][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:30.185][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:30.189][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:30.190][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:30.191][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:30.192][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:30.193][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:30.194][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:30.195][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:30.195][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:30.196][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:30.197][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:30.198][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:30.199][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:30.200][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:30.201][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:30.202][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:30.203][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:30.205][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-08-30 16:04:30.207][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-08-30 16:04:30.209][cch$loadFileContent] Trying to load 1 files from cache: [1]: "357534c211a0779cb44e196fcebae6c0".
biodb.TRACE[2025-08-30 16:04:30.210][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-08-30 16:04:30.211][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/357534c211a0779cb44e196fcebae6c0.content".
biodb.DEBUG[2025-08-30 16:04:30.213][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:30.214][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:30.215][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:30.219][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:30.220][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:30.220][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:30.221][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:30.222][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:30.223][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:30.224][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:30.225][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:30.226][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:30.227][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:30.228][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:30.229][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:30.230][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:30.231][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:30.232][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:30.233][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:30.234][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:30.235][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:30.235][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:30.239][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:30.240][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:30.241][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:30.242][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:30.243][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:30.244][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:30.245][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:30.246][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:30.247][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:30.248][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:30.249][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:30.250][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:30.250][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:30.251][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:30.252][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:30.253][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:30.254][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:30.255][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:30.256][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:30.260][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:30.261][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:30.262][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:30.262][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:30.263][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:30.264][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:30.265][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:30.266][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:30.267][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:30.268][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:30.269][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:30.270][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:30.271][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:30.272][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:30.273][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:30.274][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:30.275][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-08-30 16:04:30.276][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:30.277][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:30.278][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:30.282][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:30.283][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:30.284][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:30.285][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:30.286][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:30.287][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:30.288][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:30.289][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:30.290][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:30.291][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:30.292][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:30.292][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:30.293][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:30.299][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:30.300][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:30.301][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:30.302][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:30.303][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:30.304][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:30.305][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:30.306][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:30.307][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:30.308][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:30.309][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:30.310][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:30.311][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:30.312][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:30.313][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:30.313][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:30.314][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:30.315][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:30.316][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:30.317][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:30.318][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:30.319][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:30.320][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:30.321][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:30.322][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:30.323][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:30.324][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:30.325][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:30.326][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:30.327][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:30.327][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:30.328][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:30.329][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:30.330][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:30.331][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:30.332][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:30.333][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:30.334][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:30.335][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:30.336][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:30.337][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:30.338][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:30.339][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:30.340][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:30.341][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:30.341][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:30.342][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:30.343][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:30.344][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:30.345][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:30.346][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:30.347][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:30.348][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:30.349][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:30.350][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:30.351][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:30.352][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:30.353][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:30.353][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:30.354][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:30.355][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:30.356][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:30.357][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:30.358][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:04:30.359][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:30.360][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:30.361][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:30.362][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:04:30.363][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:30.364][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:30.365][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:30.366][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:30.367][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:30.367][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:30.368][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:30.369][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:30.370][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:30.371][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:30.372][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:30.373][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:30.374][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:30.375][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:30.376][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:30.377][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:30.378][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:30.379][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:30.380][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:30.381][private$selectFields] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2025-08-30 16:04:30.381][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:04:30.382][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:04:30.383][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:04:30.384][private$selectFields] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2025-08-30 16:04:30.385][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:30.386][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:30.387][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:30.388][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:30.389][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:30.390][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:30.391][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:30.391][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:30.392][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:30.393][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:30.394][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:30.395][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:30.396][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:30.397][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:30.398][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:30.399][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:30.400][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:30.401][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:30.402][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:30.403][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:30.404][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:30.405][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:30.405][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:30.406][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:30.407][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:30.408][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:30.409][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:30.410][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:30.411][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:30.412][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:30.413][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:30.414][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:30.415][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:30.416][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:30.416][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:30.417][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:30.418][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:04:30.419][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:30.420][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:30.421][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:30.422][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:30.423][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:30.424][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:30.425][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:30.426][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:30.427][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:30.428][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:30.428][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:30.429][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:30.430][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:30.431][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:30.432][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:30.433][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:30.434][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:30.435][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:30.436][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:30.437][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:30.438][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:30.439][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:30.440][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:30.441][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:30.442][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:30.442][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:30.443][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:30.444][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:30.445][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:30.446][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:30.447][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:30.448][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:30.449][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:30.450][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:30.451][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:30.452][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:30.453][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:30.454][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:30.455][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:30.456][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:30.457][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:30.458][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:30.458][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:30.459][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:30.460][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:30.461][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:30.462][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:30.463][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:04:30.464][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:30.465][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:30.466][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:30.467][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:30.468][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:30.469][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:30.470][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:30.471][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:30.472][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:30.473][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:30.474][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:30.475][private$selectFields] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2025-08-30 16:04:30.475][private$organizeFieldsByGroups] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2025-08-30 16:04:30.476][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:30.477][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:30.478][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:30.479][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:30.480][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:30.481][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:30.482][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:30.483][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:30.484][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:30.485][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:30.486][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:30.487][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:30.488][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:30.489][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:30.490][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:30.491][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:30.491][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:30.492][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:30.493][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:30.494][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:30.495][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:30.496][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:30.497][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:30.498][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:30.499][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:30.500][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:30.501][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:30.502][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:30.503][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:30.504][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:30.505][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:30.505][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:30.506][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:30.507][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:30.508][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:30.509][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:30.510][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:04:30.511][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:30.512][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:30.513][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:30.514][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:30.515][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:30.516][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:30.517][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:30.517][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:30.518][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:30.519][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:30.520][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:30.521][private$organizeFieldsByGroups] Groups [2]: "c("accession", "charge", "chebi.id", "formula", "inchi", "inchikey", "kegg.compound.id", "molecular.mass", "monoisotopic.mass", "n.stars", "name", "smiles"), list()"
biodb.TRACE[2025-08-30 16:04:30.522][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:30.523][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:30.524][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:30.525][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:30.526][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:30.527][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:30.528][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:30.529][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:30.530][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:30.531][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:30.532][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:30.533][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:30.534][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:30.535][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:30.536][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:30.537][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:30.538][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:30.539][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:30.540][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:30.540][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:30.541][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:30.542][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:30.543][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:30.544][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:30.545][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:30.546][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:30.547][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:30.548][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:30.549][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:30.550][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:30.551][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:30.552][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:30.553][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:30.554][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:30.555][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:30.556][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:30.557][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:30.558][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:30.559][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:30.560][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:30.561][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:30.562][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:30.563][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:30.563][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:30.564][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:30.565][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:30.566][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:30.567][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:30.568][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:30.569][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:30.570][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:30.571][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:30.572][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:30.573][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:30.574][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:30.575][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:30.576][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:30.577][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:30.578][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:30.579][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:30.580][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:30.581][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:30.582][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:30.583][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:30.584][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:30.585][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:30.586][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:30.587][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:30.587][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:30.588][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:30.589][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:30.590][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:30.591][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:30.592][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:30.593][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:30.594][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:30.595][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:30.596][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:30.597][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:30.598][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:30.599][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:30.600][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:30.601][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:30.602][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:30.603][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:30.604][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:30.605][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:30.606][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:30.607][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:30.608][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:30.609][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:30.610][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:30.611][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:30.616][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:30.617][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:30.618][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:30.619][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:30.620][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:30.621][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:30.622][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:30.623][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:30.624][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:30.625][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:30.626][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:30.626][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:30.627][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:30.628][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:30.629][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:30.630][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:04:30.631][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:30.632][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:30.633][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:30.634][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:04:30.635][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:30.636][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:30.637][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:30.638][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:04:30.639][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:30.640][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:30.641][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:30.642][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:30.643][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:30.643][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:30.644][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:30.645][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:30.646][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:30.647][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:30.648][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:30.649][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:30.650][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:30.651][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:30.652][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:30.653][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:30.654][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:30.655][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:30.656][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:30.657][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:30.658][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:30.658][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:30.659][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:30.660][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:30.661][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:30.662][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:30.663][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:30.670][private$entriesToListOfDataframes] Entry converted to data frame: [1, 12]: [accession, charge, chebi.id, formula, inchi, ...] [7799, 0, 7799, C16H31N2O8P, InChI=1S/C16H28N2O4.H3O4P/c1-5-12(6-2)22-14-9-11(16(20)21-7-3)8-13(17)15(14)18-10(4)19;1-5(2,3)4/h9,12-15H,5-8,17H2,1-4H3,(H,18,19);(H3,1,2,3,4)/t13-,14+,15+;/m0./s1, ...].
biodb.DEBUG[2025-08-30 16:04:30.671][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:30.671][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:30.672][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:30.676][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:30.677][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:30.678][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:30.679][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:30.680][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:30.681][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:30.682][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:30.683][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:30.684][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:30.685][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:30.686][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:30.687][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:30.687][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:30.688][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:30.689][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:30.690][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:30.691][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:30.692][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:30.693][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:30.694][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:30.695][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:30.696][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:30.697][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:30.698][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:30.699][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:30.700][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:30.701][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:30.701][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:30.702][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:30.703][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:30.704][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:30.705][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:30.706][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:30.707][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:30.708][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:30.709][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:30.710][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:30.711][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:30.712][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:30.713][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:30.713][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:30.714][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:30.715][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:30.716][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:30.717][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:30.718][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:30.719][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:30.720][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:30.721][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:30.722][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:30.723][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:30.724][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:30.725][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:30.726][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:30.727][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:30.727][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:30.728][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:30.729][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:30.730][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:30.731][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:30.732][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:30.733][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:30.734][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:30.735][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:30.736][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:30.737][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:30.738][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:30.739][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:30.740][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:30.741][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:30.741][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:30.742][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:30.743][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:30.744][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:30.745][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:30.746][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:30.747][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:04:30.748][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:30.749][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:30.750][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:30.751][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:04:30.752][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:30.753][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:30.754][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:30.755][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:30.756][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:30.756][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:30.757][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:30.758][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:30.759][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:30.760][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:30.761][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:30.762][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:30.763][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:30.764][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:30.765][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:30.766][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:30.767][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:30.768][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:30.769][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:30.770][private$selectFields] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2025-08-30 16:04:30.771][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:04:30.771][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:04:30.772][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:04:30.773][private$selectFields] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2025-08-30 16:04:30.774][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:30.775][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:30.776][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:30.777][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:30.778][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:30.779][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:30.780][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:30.781][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:30.782][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:30.783][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:30.784][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:30.785][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:30.785][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:30.786][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:30.787][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:30.788][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:30.789][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:30.790][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:30.791][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:30.792][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:30.793][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:30.794][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:30.795][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:30.796][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:30.797][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:30.798][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:30.799][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:30.799][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:30.800][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:30.801][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:30.802][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:30.803][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:30.804][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:30.805][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:30.806][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:30.807][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:30.808][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:04:30.809][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:30.810][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:30.811][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:30.812][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:30.813][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:30.813][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:30.814][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:30.815][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:30.816][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:30.817][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:30.818][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:30.819][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:30.820][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:30.821][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:30.822][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:30.823][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:30.824][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:30.825][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:30.826][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:30.826][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:30.827][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:30.828][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:30.829][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:30.830][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:30.831][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:30.832][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:30.833][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:30.834][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:30.835][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:30.836][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:30.837][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:30.838][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:30.839][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:30.839][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:30.840][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:30.841][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:30.842][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:30.843][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:30.844][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:30.845][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:30.846][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:30.847][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:30.848][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:30.849][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:30.850][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:30.851][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:30.852][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:30.852][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:04:30.854][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:30.854][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:30.855][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:30.856][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:30.857][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:30.858][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:30.859][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:30.860][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:30.861][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:30.862][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:30.863][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:30.864][private$selectFields] Fields [11]: "accession, charge, chebi.id, formula, inchi, inchikey, molecular.mass, monoisotopic.mass, n.stars, name, ..."
biodb.TRACE[2025-08-30 16:04:30.865][private$organizeFieldsByGroups] Fields [11]: "accession, charge, chebi.id, formula, inchi, inchikey, molecular.mass, monoisotopic.mass, n.stars, name, ..."
biodb.TRACE[2025-08-30 16:04:30.866][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:30.867][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:30.868][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:30.868][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:30.869][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:30.870][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:30.871][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:30.872][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:30.873][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:30.874][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:30.875][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:30.876][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:30.877][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:30.878][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:30.879][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:30.880][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:30.881][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:30.882][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:30.882][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:30.883][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:30.884][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:30.885][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:30.886][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:30.887][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:30.888][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:30.889][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:30.890][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:30.891][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:30.892][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:30.893][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:30.894][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:30.895][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:30.895][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:04:30.896][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:30.897][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:30.898][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:30.899][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:30.900][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:30.901][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:30.902][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:30.903][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:30.904][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:30.905][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:30.906][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:30.907][private$organizeFieldsByGroups] Groups [2]: "c("accession", "charge", "chebi.id", "formula", "inchi", "inchikey", "molecular.mass", "monoisotopic.mass", "n.stars", "name", "smiles"), list()"
biodb.TRACE[2025-08-30 16:04:30.908][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:30.909][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:30.910][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:30.911][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:30.911][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:30.912][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:30.913][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:30.914][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:30.915][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:30.916][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:30.917][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:30.918][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:30.919][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:30.920][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:30.921][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:30.922][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:30.923][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:30.924][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:30.929][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:30.930][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:30.931][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:30.932][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:30.933][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:30.934][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:30.935][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:30.936][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:30.937][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:30.938][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:30.939][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:30.940][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:30.941][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:30.942][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:30.943][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:30.944][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:30.944][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:30.945][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:30.946][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:30.947][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:30.948][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:30.949][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:30.950][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:30.951][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:30.952][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:30.953][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:30.954][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:30.955][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:30.956][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:30.957][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:30.958][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:30.959][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:30.960][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:30.960][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:30.961][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:30.962][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:30.963][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:30.964][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:30.965][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:30.966][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:30.967][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:30.968][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:30.969][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:30.970][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:30.971][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:30.972][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:30.973][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:30.974][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:30.975][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:30.975][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:30.976][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:30.977][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:30.978][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:30.979][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:30.980][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:30.981][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:30.982][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:30.983][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:30.984][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:30.985][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:30.986][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:30.987][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:30.988][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:30.989][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:30.990][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:30.990][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:30.991][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:30.992][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:30.993][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:30.994][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:30.995][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:30.996][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:30.997][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:30.998][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:30.999][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:31.000][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:31.001][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:31.002][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:31.003][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:04:31.004][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:31.005][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:31.005][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:31.006][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:04:31.007][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:31.008][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:31.009][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:31.010][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:04:31.011][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:31.012][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:31.013][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:31.014][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:31.015][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:31.016][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:31.017][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:31.018][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:31.019][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:31.020][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:31.021][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:31.021][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:31.022][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:31.023][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:31.024][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:31.025][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:31.026][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:31.027][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:31.028][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:31.029][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:31.030][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:31.031][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:31.032][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:31.033][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:31.034][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:31.035][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:31.036][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:31.042][private$entriesToListOfDataframes] Entry converted to data frame: [1, 11]: [accession, charge, chebi.id, formula, inchi, ...] [71954, 0, 71954, C18H21F3N6O2, InChI=1S/C18H21F3N6O2/c19-18(20,21)13-9-15(22)23-11-12(13)14-10-16(26-1-5-28-6-2-26)25-17(24-14)27-3-7-29-8-4-27/h9-11H,1-8H2,(H2,22,23), ...].
biodb.DEBUG[2025-08-30 16:04:31.043][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:31.043][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:31.044][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:31.048][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:31.049][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:31.050][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:31.051][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:31.052][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:31.053][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:31.054][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:31.055][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:31.056][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:31.057][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:31.058][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:31.059][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:31.060][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:31.061][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:31.061][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:31.062][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:31.063][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:31.064][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:31.065][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:31.066][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:31.067][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:31.068][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:31.069][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:31.070][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:31.071][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:31.072][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:31.073][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:31.074][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:31.075][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:31.076][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:31.076][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:31.077][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:31.078][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:31.079][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:31.080][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:31.081][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:31.082][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:31.083][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:31.084][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:31.085][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:31.086][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:31.087][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:31.088][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:31.089][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:31.090][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:31.091][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:31.092][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:31.093][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:31.093][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:31.094][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:31.095][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:31.096][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:31.097][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:31.098][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:31.099][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:31.100][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:31.101][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:31.102][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:31.103][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:31.104][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:31.105][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:31.106][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:31.107][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:31.108][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:31.109][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:31.110][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:31.111][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:31.111][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:31.112][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:31.113][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:31.114][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:31.115][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:31.116][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:31.117][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:31.118][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:31.119][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:31.120][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:04:31.121][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:31.122][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:31.123][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:31.124][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:04:31.125][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:31.126][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:31.127][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:31.127][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:31.128][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:31.129][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:31.130][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:31.131][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:31.132][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:31.133][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:31.134][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:31.135][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:31.136][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:31.137][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:31.138][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:31.139][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:31.140][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:31.141][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:31.142][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:31.143][private$selectFields] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2025-08-30 16:04:31.144][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:04:31.144][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:04:31.145][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:04:31.146][private$selectFields] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2025-08-30 16:04:31.147][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:31.148][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:31.149][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:31.150][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:31.151][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:31.152][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:31.153][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:31.154][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:31.155][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:31.156][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:31.157][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:31.157][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:31.158][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:31.159][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:31.160][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:31.161][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:31.162][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:31.163][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:31.164][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:31.165][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:31.166][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:31.167][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:31.168][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:31.169][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:31.170][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:31.171][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:31.171][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:31.172][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:31.173][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:31.174][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:31.175][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:31.176][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:31.177][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:31.178][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:31.179][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:31.180][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:31.181][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:04:31.182][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:31.183][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:31.184][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:31.184][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:31.185][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:31.186][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:31.187][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:31.188][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:31.189][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:31.190][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:31.191][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:31.192][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:31.193][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:31.194][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:31.195][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:31.196][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:31.197][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:31.198][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:31.198][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:31.199][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:31.200][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:31.201][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:31.202][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:31.203][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:31.204][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:31.205][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:31.206][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:31.207][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:31.208][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:31.209][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:31.210][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:31.211][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:31.212][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:31.212][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:31.213][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:31.214][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:31.215][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:31.216][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:31.217][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:31.218][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:31.219][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:31.220][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:31.221][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:31.222][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:31.223][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:31.224][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:31.225][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:31.226][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:04:31.227][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:31.227][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:31.228][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:31.229][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:31.230][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:31.231][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:31.232][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:31.233][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:31.234][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:31.235][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:31.236][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:31.237][private$selectFields] Fields [11]: "accession, charge, chebi.id, formula, inchi, inchikey, molecular.mass, monoisotopic.mass, n.stars, name, ..."
biodb.TRACE[2025-08-30 16:04:31.238][private$organizeFieldsByGroups] Fields [11]: "accession, charge, chebi.id, formula, inchi, inchikey, molecular.mass, monoisotopic.mass, n.stars, name, ..."
biodb.TRACE[2025-08-30 16:04:31.239][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:31.244][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:31.245][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:31.246][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:31.247][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:31.248][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:31.249][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:31.250][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:31.251][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:31.252][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:31.252][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:31.253][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:31.254][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:31.255][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:31.256][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:31.257][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:31.258][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:31.259][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:31.260][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:31.261][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:31.262][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:31.263][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:31.263][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:31.264][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:31.265][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:31.266][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:31.267][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:31.268][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:31.269][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:31.270][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:31.271][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:31.272][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:31.273][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:04:31.274][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:31.274][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:31.275][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:31.276][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:31.277][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:31.278][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:31.279][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:31.280][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:31.281][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:31.282][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:31.283][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:31.284][private$organizeFieldsByGroups] Groups [2]: "c("accession", "charge", "chebi.id", "formula", "inchi", "inchikey", "molecular.mass", "monoisotopic.mass", "n.stars", "name", "smiles"), list()"
biodb.TRACE[2025-08-30 16:04:31.285][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:31.286][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:31.286][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:31.287][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:31.288][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:31.289][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:31.290][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:31.291][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:31.292][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:31.293][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:31.294][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:31.295][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:31.296][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:31.297][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:31.298][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:31.299][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:31.300][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:31.301][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:31.302][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:31.302][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:31.303][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:31.304][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:31.305][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:31.306][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:31.307][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:31.308][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:31.309][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:31.310][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:31.311][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:31.312][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:31.313][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:31.314][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:31.315][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:31.316][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:31.316][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:31.317][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:31.318][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:31.319][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:31.320][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:31.321][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:31.322][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:31.323][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:31.324][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:31.325][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:31.326][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:31.327][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:31.328][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:31.329][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:31.330][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:31.331][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:31.332][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:31.332][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:31.333][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:31.334][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:31.335][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:31.336][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:31.337][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:31.338][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:31.339][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:31.340][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:31.341][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:31.342][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:31.343][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:31.344][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:31.345][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:31.346][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:31.347][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:31.347][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:31.348][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:31.349][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:31.350][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:31.351][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:31.352][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:31.353][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:31.354][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:31.355][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:31.356][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:31.357][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:31.358][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:31.359][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:31.360][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:31.361][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:31.362][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:31.362][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:31.364][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:31.365][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:31.365][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:31.366][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:31.367][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:31.368][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:31.369][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:31.370][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:31.371][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:31.372][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:31.373][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:31.374][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:31.375][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:04:31.376][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:31.377][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:31.378][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:31.379][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:04:31.380][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:31.380][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:31.381][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:31.382][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:04:31.383][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:31.384][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:31.385][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:31.386][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:31.387][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:31.388][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:31.389][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:31.390][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:31.391][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:31.392][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:31.393][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:31.394][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:31.395][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:31.396][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:31.397][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:31.398][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:31.399][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:31.400][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:31.401][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:31.401][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:31.402][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:31.403][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:31.404][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:31.405][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:31.406][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:31.407][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:31.408][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:31.414][private$entriesToListOfDataframes] Entry converted to data frame: [1, 11]: [accession, charge, chebi.id, formula, inchi, ...] [197612, 0, 197612, C18H18O9S, InChI=1S/C18H18O9S/c1-7-3-9(19)13-11(4-7)27-16-8(14(13)21)5-12(28-16)18(25,17(24)26-2)6-10(20)15(22)23/h3-4,10,12,19-20,25H,5-6H2,1-2H3,(H,22,23)/t10-,12+,18?/m1/s1, ...].
biodb.DEBUG[2025-08-30 16:04:31.415][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-08-30 16:04:31.416][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2025-08-30 16:04:31.424][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:31.425][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:31.425][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:31.429][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:31.430][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:31.431][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:31.432][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:04:31.435][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.72*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-08-30 16:04:31.437][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-08-30 16:04:31.439][cch$loadFileContent] Trying to load 1 files from cache: [1]: "dabc9e8530050c4ceebbaec76743bcf1".
biodb.TRACE[2025-08-30 16:04:31.440][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-08-30 16:04:31.441][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/dabc9e8530050c4ceebbaec76743bcf1.content".
biodb.DEBUG[2025-08-30 16:04:31.443][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:31.444][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:31.445][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:31.449][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:31.450][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:31.450][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:31.451][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:31.452][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:31.453][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:31.454][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:31.455][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:31.456][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:31.457][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:31.458][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:31.459][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:31.460][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:31.461][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:31.462][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:31.463][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:31.464][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.73*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-08-30 16:04:31.467][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-08-30 16:04:31.468][cch$loadFileContent] Trying to load 1 files from cache: [1]: "41b7f9723242a79cfe14bebd91dbb5b6".
biodb.TRACE[2025-08-30 16:04:31.470][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-08-30 16:04:31.471][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/41b7f9723242a79cfe14bebd91dbb5b6.content".
biodb.DEBUG[2025-08-30 16:04:31.473][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:31.474][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:31.475][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:31.478][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:31.479][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:31.480][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:31.481][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:31.482][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:31.483][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:31.484][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:31.485][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:31.486][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:31.487][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:31.488][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:31.489][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:31.490][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:31.491][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:31.491][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:31.492][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:31.493][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:31.494][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:31.495][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:31.499][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:31.500][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:31.501][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:31.501][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:31.503][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:31.504][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:31.504][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:31.505][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:31.506][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:31.507][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:31.508][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:31.509][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:31.510][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:31.511][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:31.512][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:31.513][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:31.514][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-08-30 16:04:31.515][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:31.516][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:31.517][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:31.521][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:31.522][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:31.523][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:31.524][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:31.525][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:31.526][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:31.527][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:31.528][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:31.528][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:31.529][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:31.530][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:31.531][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:31.532][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:31.533][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:31.534][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:31.535][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:31.536][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:31.537][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:31.538][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:31.539][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:31.540][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:31.541][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:31.542][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:31.543][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:31.544][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:31.545][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:31.546][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:31.546][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:31.547][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:31.548][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:31.549][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:31.550][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:31.551][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:31.552][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:31.553][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:31.559][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:31.560][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:31.561][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:31.562][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:31.563][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:31.564][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:31.565][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:31.565][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:31.566][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:31.567][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:31.568][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:31.569][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:31.570][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:31.571][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:31.572][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:31.573][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:31.574][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:31.575][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:31.576][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:31.577][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:31.577][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:31.578][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:31.579][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:31.580][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:31.581][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:31.582][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:31.583][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:31.584][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:31.585][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:31.586][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:31.587][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:31.588][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:31.589][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:31.590][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:31.591][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:31.591][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:31.592][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:31.593][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:31.594][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:31.595][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:31.596][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:31.597][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:04:31.598][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:31.599][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:31.600][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:31.601][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:04:31.602][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:31.603][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:31.603][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:31.604][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:31.605][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:31.606][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:31.607][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:31.608][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:31.609][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:31.610][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:31.611][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:31.612][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:31.613][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:31.614][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:31.615][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:31.616][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:31.617][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:31.617][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:31.618][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:31.619][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.attr.
biodb.TRACE[2025-08-30 16:04:31.620][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.attr.
biodb.TRACE[2025-08-30 16:04:31.621][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:31.622][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:31.623][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.attr.
biodb.TRACE[2025-08-30 16:04:31.624][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.attr.
biodb.TRACE[2025-08-30 16:04:31.625][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:31.626][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:31.627][private$selectFields] Fields [13]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2025-08-30 16:04:31.628][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:04:31.628][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:04:31.629][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:04:31.630][private$selectFields] Fields [13]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2025-08-30 16:04:31.631][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:31.632][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:31.633][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:31.634][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:31.635][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:31.636][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:31.637][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:31.638][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:31.639][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:31.640][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:31.640][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:31.641][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:31.642][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:31.643][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:31.644][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:31.645][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:31.646][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:31.647][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:31.648][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:31.649][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:31.650][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:31.651][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:31.651][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:31.652][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:31.653][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:31.654][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:31.655][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:31.656][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:31.657][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:31.658][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:31.659][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:31.660][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:31.661][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:31.662][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:31.663][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:31.663][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:31.664][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:04:31.665][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:31.666][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:31.667][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:31.668][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:31.669][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:31.670][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:31.671][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:31.672][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:31.673][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:31.674][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:31.675][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:31.675][ef$get] Asked field names are: peak.attr.
biodb.TRACE[2025-08-30 16:04:31.676][ef$get] Realnames of fields are: peak.attr.
biodb.TRACE[2025-08-30 16:04:31.677][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:31.678][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:31.679][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:31.680][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:31.681][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:31.682][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:31.683][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:31.684][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:31.685][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:31.686][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:31.687][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:31.688][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:31.688][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:31.689][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:31.690][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:31.691][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:31.692][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:31.693][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:31.694][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:31.695][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:31.696][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:31.697][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:31.698][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:31.699][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:31.700][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:31.700][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:31.701][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:31.702][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:31.703][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:31.704][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:31.705][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:31.706][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:31.707][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:31.708][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:31.709][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:31.710][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:31.711][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:31.712][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:31.713][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:04:31.714][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:31.715][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:31.715][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:31.716][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:31.717][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:31.718][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:31.719][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:31.720][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:31.721][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:31.722][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:31.723][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:31.724][ef$get] Asked field names are: peak.attr.
biodb.TRACE[2025-08-30 16:04:31.725][ef$get] Realnames of fields are: peak.attr.
biodb.TRACE[2025-08-30 16:04:31.726][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:31.727][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:31.728][private$selectFields] Fields [11]: "accession, charge, chebi.id, formula, inchi, inchikey, molecular.mass, monoisotopic.mass, n.stars, name, ..."
biodb.TRACE[2025-08-30 16:04:31.729][private$organizeFieldsByGroups] Fields [11]: "accession, charge, chebi.id, formula, inchi, inchikey, molecular.mass, monoisotopic.mass, n.stars, name, ..."
biodb.TRACE[2025-08-30 16:04:31.730][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:31.731][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:31.731][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:31.732][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:31.733][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:31.734][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:31.735][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:31.736][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:31.737][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:31.738][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:31.739][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:31.740][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:31.741][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:31.742][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:31.743][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:31.743][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:31.744][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:31.745][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:31.746][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:31.747][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:31.748][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:31.749][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:31.750][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:31.751][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:31.752][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:31.753][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:31.754][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:31.755][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:31.756][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:31.757][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:31.757][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:31.758][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:31.759][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:04:31.760][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:31.761][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:31.762][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:31.763][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:31.764][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:31.765][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:31.766][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:31.767][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:31.768][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:31.769][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:31.770][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:31.770][private$organizeFieldsByGroups] Groups [2]: "c("accession", "charge", "chebi.id", "formula", "inchi", "inchikey", "molecular.mass", "monoisotopic.mass", "n.stars", "name", "smiles"), list()"
biodb.TRACE[2025-08-30 16:04:31.771][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:31.772][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:31.773][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:31.774][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:31.775][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:31.776][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:31.777][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:31.778][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:31.779][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:31.780][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:31.781][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:31.782][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:31.783][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:31.784][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:31.785][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:31.786][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:31.787][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:31.788][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:31.789][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:31.790][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:31.790][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:31.791][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:31.792][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:31.793][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:31.794][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:31.795][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:31.796][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:31.797][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:31.798][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:31.799][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:31.800][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:31.801][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:31.802][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:31.803][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:31.804][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:31.805][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:31.806][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:31.807][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:31.808][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:31.809][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:31.810][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:31.811][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:31.811][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:31.812][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:31.813][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:31.814][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:31.815][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:31.816][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:31.817][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:31.818][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:31.819][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:31.820][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:31.821][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:31.822][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:31.823][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:31.824][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:31.825][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:31.826][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:31.827][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:31.828][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:31.829][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:31.830][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:31.831][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:31.831][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:31.832][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:31.833][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:31.834][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:31.835][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:31.836][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:31.837][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:31.838][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:31.839][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:31.840][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:31.841][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:31.842][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:31.843][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:31.844][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:31.845][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:31.846][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:31.847][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:31.848][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:31.849][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:31.849][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:31.850][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:31.851][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:31.852][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:31.853][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:31.854][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:31.855][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:31.856][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:31.857][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:31.858][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:31.859][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:31.860][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:31.861][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:31.862][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:31.863][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:04:31.864][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:31.865][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:31.866][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:31.867][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:04:31.868][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:31.873][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:31.874][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:31.875][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:04:31.876][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:31.877][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:31.878][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:31.879][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:31.880][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:31.881][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:31.882][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:31.883][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:31.884][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:31.884][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:31.885][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:31.886][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:31.887][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:31.888][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:31.889][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:31.890][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:31.891][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:31.892][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:31.893][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:31.894][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:31.895][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:31.896][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:31.897][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:31.898][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:31.899][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:31.899][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:31.900][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:31.906][private$entriesToListOfDataframes] Entry converted to data frame: [1, 11]: [accession, charge, chebi.id, formula, inchi, ...] [192288, 0, 192288, C27H54O2, InChI=1S/C27H54O2/c1-3-4-5-6-7-8-9-10-11-12-13-14-15-16-17-18-19-20-21-22-23-24-25-26-27(28)29-2/h3-26H2,1-2H3, ...].
biodb.DEBUG[2025-08-30 16:04:31.907][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:31.908][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:31.909][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:31.913][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:31.914][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:31.915][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:31.916][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:31.917][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:31.918][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:31.919][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:31.920][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:31.921][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:31.922][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:31.922][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:31.923][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:31.924][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:31.925][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:31.926][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:31.927][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:31.928][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:31.929][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:31.930][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:31.931][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:31.932][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:31.933][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:31.934][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:31.934][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:31.935][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:31.936][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:31.937][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:31.938][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:31.939][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:31.940][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:31.941][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:31.942][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:31.943][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:31.944][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:31.945][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:31.946][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:31.947][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:31.948][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:31.948][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:31.949][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:31.950][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:31.951][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:31.952][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:31.953][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:31.954][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:31.955][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:31.956][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:31.957][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:31.958][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:31.959][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:31.960][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:31.961][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:31.961][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:31.962][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:31.963][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:31.964][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:31.965][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:31.966][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:31.967][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:31.968][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:31.969][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:31.970][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:31.971][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:31.972][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:31.973][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:31.974][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:31.974][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:31.975][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:31.976][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:31.977][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:31.978][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:31.979][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:31.980][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:31.981][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:31.982][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:31.983][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:31.984][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:04:31.985][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:31.986][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:31.987][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:31.987][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:04:31.988][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:31.989][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:31.990][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:31.991][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:31.992][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:31.993][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:31.994][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:31.995][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:31.996][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:31.997][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:31.998][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:31.999][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:32.000][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:32.001][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:32.001][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:32.002][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:32.003][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:32.004][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:32.005][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:32.006][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.attr.
biodb.TRACE[2025-08-30 16:04:32.007][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.attr.
biodb.TRACE[2025-08-30 16:04:32.008][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:32.009][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:32.010][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.attr.
biodb.TRACE[2025-08-30 16:04:32.011][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.attr.
biodb.TRACE[2025-08-30 16:04:32.012][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:32.013][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:32.014][private$selectFields] Fields [13]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2025-08-30 16:04:32.015][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:04:32.015][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:04:32.016][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:04:32.017][private$selectFields] Fields [13]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2025-08-30 16:04:32.018][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:32.019][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:32.020][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:32.021][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:32.022][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:32.023][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:32.024][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:32.025][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:32.026][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:32.027][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:32.028][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:32.029][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:32.029][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:32.030][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:32.031][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:32.032][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:32.033][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:32.034][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:32.035][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:32.036][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:32.037][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:32.038][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:32.039][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:32.040][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:32.041][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:32.042][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:32.043][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:32.044][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:32.044][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:32.045][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:32.046][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:32.047][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:32.048][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:32.049][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:32.050][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:32.051][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:32.052][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:04:32.053][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:32.054][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:32.055][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:32.056][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:32.057][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:32.058][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:32.059][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:32.059][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:32.060][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:32.061][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:32.062][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:32.063][ef$get] Asked field names are: peak.attr.
biodb.TRACE[2025-08-30 16:04:32.064][ef$get] Realnames of fields are: peak.attr.
biodb.TRACE[2025-08-30 16:04:32.065][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:32.066][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:32.067][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:32.068][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:32.069][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:32.070][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:32.071][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:32.072][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:32.073][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:32.073][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:32.074][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:32.075][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:32.076][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:32.077][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:32.078][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:32.079][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:32.080][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:32.081][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:32.082][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:32.083][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:32.084][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:32.085][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:32.086][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:32.087][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:32.087][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:32.088][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:32.089][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:32.090][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:32.091][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:32.092][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:32.093][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:32.094][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:32.095][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:32.096][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:32.097][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:32.098][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:32.099][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:32.100][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:32.100][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:04:32.101][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:32.102][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:32.103][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:32.104][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:32.105][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:32.106][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:32.107][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:32.108][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:32.109][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:32.110][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:32.111][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:32.112][ef$get] Asked field names are: peak.attr.
biodb.TRACE[2025-08-30 16:04:32.113][ef$get] Realnames of fields are: peak.attr.
biodb.TRACE[2025-08-30 16:04:32.113][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:32.114][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:32.115][private$selectFields] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2025-08-30 16:04:32.116][private$organizeFieldsByGroups] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2025-08-30 16:04:32.117][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:32.118][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:32.119][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:32.120][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:32.121][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:32.122][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:32.123][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:32.124][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:32.125][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:32.126][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:32.127][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:32.127][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:32.128][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:32.129][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:32.130][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:32.131][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:32.132][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:32.133][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:32.134][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:32.135][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:32.136][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:32.137][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:32.138][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:32.139][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:32.139][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:32.140][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:32.141][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:32.142][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:32.143][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:32.144][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:32.145][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:32.146][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:32.147][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:32.148][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:32.149][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:32.150][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:32.151][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:04:32.152][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:32.153][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:32.153][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:32.154][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:32.155][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:32.156][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:32.157][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:32.158][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:32.159][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:32.160][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:32.161][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:32.162][private$organizeFieldsByGroups] Groups [2]: "c("accession", "charge", "chebi.id", "formula", "inchi", "inchikey", "kegg.compound.id", "molecular.mass", "monoisotopic.mass", "n.stars", "name", "smiles"), list()"
biodb.TRACE[2025-08-30 16:04:32.163][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:32.164][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:32.165][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:32.166][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:32.167][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:32.168][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:32.169][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:32.169][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:32.170][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:32.171][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:32.172][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:32.173][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:32.174][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:32.175][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:32.176][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:32.177][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:32.178][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:32.179][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:32.180][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:32.181][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:32.186][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:32.187][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:32.188][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:32.189][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:32.190][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:32.191][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:32.192][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:32.193][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:32.194][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:32.195][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:32.196][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:32.197][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:32.198][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:32.199][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:32.200][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:32.201][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:32.202][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:32.203][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:32.204][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:32.204][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:32.205][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:32.206][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:32.207][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:32.208][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:32.209][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:32.210][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:32.211][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:32.212][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:32.213][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:32.214][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:32.215][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:32.216][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:32.217][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:32.218][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:32.218][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:32.219][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:32.220][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:32.221][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:32.222][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:32.223][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:32.224][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:32.225][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:32.226][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:32.227][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:32.228][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:32.229][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:32.230][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:32.231][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:32.232][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:32.233][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:32.233][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:32.234][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:32.235][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:32.236][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:32.237][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:32.238][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:32.239][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:32.240][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:32.241][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:32.242][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:32.243][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:32.244][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:32.245][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:32.246][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:32.247][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:32.248][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:32.249][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:32.249][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:32.250][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:32.251][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:32.252][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:32.253][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:32.254][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:32.255][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:32.256][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:32.257][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:32.258][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:32.259][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:32.260][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:32.261][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:32.262][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:32.263][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:32.264][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:32.264][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:32.265][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:32.266][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:32.267][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:32.268][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:32.269][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:04:32.270][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:32.271][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:32.272][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:32.273][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:04:32.274][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:32.275][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:32.276][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:32.277][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:04:32.278][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:32.279][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:32.279][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:32.281][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:32.282][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:32.282][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:32.283][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:32.284][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:32.285][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:32.286][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:32.287][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:32.288][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:32.289][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:32.290][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:32.291][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:32.292][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:32.293][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:32.294][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:32.295][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:32.296][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:32.297][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:32.297][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:32.298][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:32.299][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:32.300][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:32.301][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:32.302][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:32.309][private$entriesToListOfDataframes] Entry converted to data frame: [1, 12]: [accession, charge, chebi.id, formula, inchi, ...] [15440, 0, 15440, C30H50, InChI=1S/C30H50/c1-25(2)15-11-19-29(7)23-13-21-27(5)17-9-10-18-28(6)22-14-24-30(8)20-12-16-26(3)4/h15-18,23-24H,9-14,19-22H2,1-8H3/b27-17+,28-18+,29-23+,30-24+, ...].
biodb.DEBUG[2025-08-30 16:04:32.310][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:32.310][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:32.311][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:32.315][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:32.316][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:32.317][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:32.318][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:32.319][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:32.320][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:32.321][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:32.322][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:32.323][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:32.324][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:32.325][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:32.326][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:32.327][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:32.328][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:32.328][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:32.329][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:32.330][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:32.331][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:32.332][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:32.333][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:32.334][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:32.335][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:32.336][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:32.337][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:32.338][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:32.339][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:32.340][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:32.341][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:32.342][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:32.343][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:32.344][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:32.345][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:32.345][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:32.347][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:32.347][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:32.348][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:32.349][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:32.350][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:32.351][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:32.352][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:32.353][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:32.354][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:32.355][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:32.356][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:32.357][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:32.358][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:32.359][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:32.360][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:32.361][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:32.362][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:32.363][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:32.363][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:32.364][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:32.365][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:32.366][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:32.367][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:32.368][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:32.369][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:32.370][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:32.371][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:32.372][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:32.373][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:32.374][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:32.375][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:32.376][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:32.377][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:32.378][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:32.379][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:32.380][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:32.382][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:32.383][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:32.384][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:32.385][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:32.386][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:32.387][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:32.388][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:32.389][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:04:32.390][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:32.391][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:32.392][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:32.393][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:04:32.394][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:32.395][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:32.396][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:32.397][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:32.398][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:32.398][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:32.399][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:32.400][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:32.401][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:32.402][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:32.403][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:32.404][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:32.405][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:32.406][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:32.407][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:32.408][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:32.409][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:32.410][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:32.411][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:32.412][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.attr.
biodb.TRACE[2025-08-30 16:04:32.413][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.attr.
biodb.TRACE[2025-08-30 16:04:32.414][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:32.415][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:32.416][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.attr.
biodb.TRACE[2025-08-30 16:04:32.417][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.attr.
biodb.TRACE[2025-08-30 16:04:32.418][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:32.419][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:32.420][private$selectFields] Fields [13]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2025-08-30 16:04:32.421][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:04:32.422][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:04:32.423][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:04:32.424][private$selectFields] Fields [13]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2025-08-30 16:04:32.425][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:32.426][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:32.427][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:32.428][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:32.428][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:32.429][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:32.430][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:32.431][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:32.432][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:32.433][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:32.434][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:32.435][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:32.436][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:32.437][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:32.438][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:32.439][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:32.440][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:32.441][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:32.442][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:32.443][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:32.444][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:32.445][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:32.446][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:32.447][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:32.448][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:32.449][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:32.450][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:32.450][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:32.451][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:32.452][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:32.453][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:32.454][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:32.455][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:32.456][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:32.457][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:32.458][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:32.459][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:04:32.460][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:32.461][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:32.462][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:32.463][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:32.464][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:32.465][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:32.466][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:32.467][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:32.468][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:32.469][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:32.470][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:32.471][ef$get] Asked field names are: peak.attr.
biodb.TRACE[2025-08-30 16:04:32.472][ef$get] Realnames of fields are: peak.attr.
biodb.TRACE[2025-08-30 16:04:32.473][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:32.473][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:32.474][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:32.475][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:32.476][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:32.477][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:32.478][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:32.479][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:32.480][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:32.481][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:32.482][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:32.483][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:32.484][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:32.485][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:32.486][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:32.487][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:32.488][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:32.489][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:32.490][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:32.491][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:32.492][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:32.493][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:32.493][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:32.494][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:32.495][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:32.496][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:32.497][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:32.498][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:32.503][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:32.505][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:32.506][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:32.507][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:32.508][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:32.509][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:32.510][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:32.511][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:32.511][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:32.512][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:32.513][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:04:32.514][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:32.515][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:32.516][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:32.517][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:32.518][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:32.519][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:32.520][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:32.521][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:32.522][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:32.522][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:32.523][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:32.524][ef$get] Asked field names are: peak.attr.
biodb.TRACE[2025-08-30 16:04:32.525][ef$get] Realnames of fields are: peak.attr.
biodb.TRACE[2025-08-30 16:04:32.526][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:32.527][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:32.528][private$selectFields] Fields [11]: "accession, charge, chebi.id, formula, inchi, inchikey, molecular.mass, monoisotopic.mass, n.stars, name, ..."
biodb.TRACE[2025-08-30 16:04:32.529][private$organizeFieldsByGroups] Fields [11]: "accession, charge, chebi.id, formula, inchi, inchikey, molecular.mass, monoisotopic.mass, n.stars, name, ..."
biodb.TRACE[2025-08-30 16:04:32.530][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:32.531][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:32.532][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:32.533][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:32.533][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:32.534][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:32.535][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:32.536][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:32.537][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:32.538][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:32.539][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:32.540][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:32.541][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:32.542][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:32.543][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:32.544][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:32.544][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:32.545][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:32.546][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:32.547][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:32.548][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:32.549][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:32.550][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:32.551][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:32.552][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:32.553][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:32.554][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:32.555][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:32.555][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:32.556][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:32.557][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:32.558][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:32.559][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:04:32.560][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:32.561][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:32.562][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:32.563][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:32.564][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:32.565][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:32.566][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:32.566][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:32.567][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:32.568][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:32.569][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:32.570][private$organizeFieldsByGroups] Groups [2]: "c("accession", "charge", "chebi.id", "formula", "inchi", "inchikey", "molecular.mass", "monoisotopic.mass", "n.stars", "name", "smiles"), list()"
biodb.TRACE[2025-08-30 16:04:32.571][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:32.572][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:32.573][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:32.574][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:32.575][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:32.576][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:32.577][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:32.578][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:32.579][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:32.580][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:32.580][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:32.581][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:32.582][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:32.583][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:32.584][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:32.585][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:32.586][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:32.587][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:32.588][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:32.589][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:32.590][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:32.591][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:32.592][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:32.593][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:32.594][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:32.595][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:32.596][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:32.597][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:32.597][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:32.598][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:32.599][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:32.600][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:32.601][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:32.602][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:32.603][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:32.604][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:32.605][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:32.606][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:32.607][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:32.608][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:32.609][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:32.610][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:32.611][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:32.611][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:32.612][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:32.613][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:32.614][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:32.615][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:32.616][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:32.617][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:32.618][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:32.619][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:32.620][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:32.621][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:32.622][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:32.623][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:32.624][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:32.625][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:32.626][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:32.627][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:32.628][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:32.629][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:32.630][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:32.630][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:32.631][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:32.632][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:32.633][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:32.634][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:32.635][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:32.636][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:32.637][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:32.638][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:32.639][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:32.640][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:32.641][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:32.642][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:32.643][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:32.644][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:32.645][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:32.645][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:32.646][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:32.647][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:32.648][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:32.649][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:32.650][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:32.651][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:32.652][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:32.653][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:32.654][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:32.655][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:32.656][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:32.657][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:32.658][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:32.659][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:32.660][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:32.661][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:32.662][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:04:32.663][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:32.664][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:32.665][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:32.666][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:04:32.667][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:32.668][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:32.668][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:32.669][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:04:32.670][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:32.671][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:32.672][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:32.673][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:32.674][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:32.675][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:32.676][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:32.677][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:32.678][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:32.679][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:32.680][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:32.681][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:32.682][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:32.683][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:32.684][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:32.685][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:32.686][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:32.687][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:32.688][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:32.689][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:32.690][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:32.690][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:32.691][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:32.692][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:32.693][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:32.694][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:32.695][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:32.701][private$entriesToListOfDataframes] Entry converted to data frame: [1, 11]: [accession, charge, chebi.id, formula, inchi, ...] [209892, 0, 209892, C30H50, InChI=1S/C30H50/c1-21(2)11-9-12-22(3)23-15-19-30(8)25-13-14-26-27(4,5)17-10-18-28(26,6)24(25)16-20-29(23,30)7/h11,13,22-24,26H,9-10,12,14-20H2,1-8H3/t22-,23+,24+,26+,28-,29+,30-/m1/s1, ...].
biodb.DEBUG[2025-08-30 16:04:32.702][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-08-30 16:04:32.703][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2025-08-30 16:04:32.706][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:32.707][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:32.708][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:32.712][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:32.713][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:32.714][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:32.714][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:04:32.717][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=480.62*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-08-30 16:04:32.720][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-08-30 16:04:32.721][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b3cd8ddf08f509014f10dc9bf7c1649d".
biodb.TRACE[2025-08-30 16:04:32.722][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-08-30 16:04:32.723][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b3cd8ddf08f509014f10dc9bf7c1649d.content".
biodb.DEBUG[2025-08-30 16:04:32.726][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:32.726][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:32.727][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:32.731][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:32.732][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:32.733][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:32.734][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:32.735][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:32.736][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:32.737][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:32.738][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:32.739][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:32.740][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:32.741][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:32.741][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:32.742][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:32.743][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:32.744][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:32.745][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:32.746][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:32.747][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:32.748][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:32.752][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:32.753][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:32.754][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:32.754][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:32.756][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:32.757][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:32.758][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:32.758][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:32.759][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:32.760][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:32.761][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:32.762][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:32.763][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:32.764][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:32.765][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:32.766][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:32.768][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=480.63*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-08-30 16:04:32.770][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-08-30 16:04:32.772][cch$loadFileContent] Trying to load 1 files from cache: [1]: "831507e33c6cf42061851262412f5feb".
biodb.TRACE[2025-08-30 16:04:32.773][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-08-30 16:04:32.774][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/831507e33c6cf42061851262412f5feb.content".
biodb.DEBUG[2025-08-30 16:04:32.777][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:32.778][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:32.779][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:32.783][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:32.783][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:32.784][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:32.785][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:32.786][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:32.787][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:32.788][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:32.789][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:32.790][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:32.791][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:32.792][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:32.793][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:32.794][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:32.795][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:32.796][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:32.797][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:32.798][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:32.798][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:32.799][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:32.803][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:32.804][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:32.805][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:32.806][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:32.807][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:32.808][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:32.809][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:32.810][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:32.811][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:32.812][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:32.813][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:32.814][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:32.819][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:32.820][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:32.821][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:32.822][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:32.823][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:32.824][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:32.825][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:32.829][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:32.830][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:32.830][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:32.831][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:32.832][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:32.833][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:32.834][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:32.835][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:32.836][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:32.837][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:32.838][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:32.839][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:32.840][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:32.841][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:32.842][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:32.843][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:32.844][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-08-30 16:04:32.845][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:32.846][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:32.847][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:32.851][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:32.851][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:32.852][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:32.853][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:32.854][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:32.855][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:32.856][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:32.857][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:32.858][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:32.859][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:32.860][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:32.861][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:32.862][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:32.863][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:32.864][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:32.864][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:32.865][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:32.866][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:32.867][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:32.868][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:32.869][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:32.870][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:32.871][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:32.872][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:32.873][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:32.874][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:32.875][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:32.876][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:32.877][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:32.878][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:32.878][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:32.879][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:32.880][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:32.881][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:32.882][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:32.883][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:32.884][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:32.885][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:32.886][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:32.887][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:32.888][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:32.889][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:32.890][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:32.890][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:32.891][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:32.892][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:32.893][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:32.894][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:32.895][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:32.896][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:32.897][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:32.898][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:32.899][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:32.900][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:32.901][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:32.902][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:32.903][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:32.904][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:32.904][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:32.905][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:32.906][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:32.907][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:32.908][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:32.909][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:32.910][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:32.911][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:32.912][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:32.913][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:32.914][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:32.915][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:32.916][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:32.916][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:32.917][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:32.918][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:32.919][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:32.920][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:32.921][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:04:32.922][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:32.923][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:32.924][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:32.925][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:04:32.926][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:32.927][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:32.928][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:32.929][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:32.930][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:32.930][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:32.931][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:32.932][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:32.933][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:32.934][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:32.935][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:32.936][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:32.937][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:32.938][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:32.939][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:32.940][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:32.941][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:32.942][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:32.943][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:32.944][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.attr.
biodb.TRACE[2025-08-30 16:04:32.945][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.attr.
biodb.TRACE[2025-08-30 16:04:32.945][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:32.946][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:32.947][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.attr.
biodb.TRACE[2025-08-30 16:04:32.948][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.attr.
biodb.TRACE[2025-08-30 16:04:32.949][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:32.950][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:32.951][private$selectFields] Fields [13]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2025-08-30 16:04:32.952][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:04:32.953][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:04:32.954][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:04:32.955][private$selectFields] Fields [13]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2025-08-30 16:04:32.956][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:32.957][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:32.957][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:32.958][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:32.959][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:32.960][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:32.961][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:32.962][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:32.963][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:32.964][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:32.965][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:32.966][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:32.967][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:32.968][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:32.969][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:32.970][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:32.970][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:32.971][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:32.972][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:32.973][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:32.974][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:32.975][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:32.976][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:32.977][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:32.978][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:32.979][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:32.980][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:32.981][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:32.982][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:32.983][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:32.984][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:32.985][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:32.985][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:32.986][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:32.987][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:32.988][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:32.989][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:04:32.990][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:32.991][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:32.992][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:32.993][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:32.994][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:32.995][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:32.996][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:32.997][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:32.998][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:32.999][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:32.999][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:33.000][ef$get] Asked field names are: peak.attr.
biodb.TRACE[2025-08-30 16:04:33.001][ef$get] Realnames of fields are: peak.attr.
biodb.TRACE[2025-08-30 16:04:33.002][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:33.003][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:33.004][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:33.005][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:33.006][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:33.007][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:33.008][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:33.009][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:33.010][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:33.011][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:33.012][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:33.013][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:33.014][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:33.014][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:33.015][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:33.016][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:33.017][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:33.018][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:33.019][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:33.020][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:33.021][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:33.022][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:33.023][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:33.024][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:33.025][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:33.026][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:33.027][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:33.028][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:33.028][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:33.029][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:33.030][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:33.031][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:33.032][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:33.033][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:33.034][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:33.035][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:33.036][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:33.037][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:33.038][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:04:33.039][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:33.040][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:33.041][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:33.041][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:33.042][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:33.043][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:33.044][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:33.045][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:33.046][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:33.047][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:33.048][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:33.049][ef$get] Asked field names are: peak.attr.
biodb.TRACE[2025-08-30 16:04:33.050][ef$get] Realnames of fields are: peak.attr.
biodb.TRACE[2025-08-30 16:04:33.051][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:33.052][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:33.053][private$selectFields] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2025-08-30 16:04:33.054][private$organizeFieldsByGroups] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2025-08-30 16:04:33.055][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:33.056][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:33.057][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:33.057][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:33.058][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:33.059][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:33.060][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:33.061][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:33.062][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:33.063][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:33.064][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:33.065][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:33.066][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:33.067][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:33.068][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:33.069][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:33.069][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:33.070][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:33.071][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:33.072][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:33.073][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:33.074][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:33.075][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:33.076][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:33.077][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:33.078][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:33.079][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:33.080][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:33.081][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:33.082][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:33.083][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:33.083][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:33.084][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:33.085][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:33.086][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:33.087][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:33.088][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:04:33.089][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:33.090][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:33.091][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:33.092][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:33.093][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:33.094][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:33.095][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:33.096][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:33.097][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:33.097][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:33.098][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:33.099][private$organizeFieldsByGroups] Groups [2]: "c("accession", "charge", "chebi.id", "formula", "inchi", "inchikey", "kegg.compound.id", "molecular.mass", "monoisotopic.mass", "n.stars", "name", "smiles"), list()"
biodb.TRACE[2025-08-30 16:04:33.100][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:33.101][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:33.102][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:33.103][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:33.104][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:33.105][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:33.106][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:33.107][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:33.108][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:33.109][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:33.110][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:33.111][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:33.112][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:33.113][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:33.114][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:33.115][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:33.116][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:33.117][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:33.118][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:33.119][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:33.119][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:33.120][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:33.121][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:33.122][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:33.123][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:33.124][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:33.125][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:33.126][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:33.127][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:33.132][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:33.134][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:33.135][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:33.136][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:33.137][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:33.137][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:33.138][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:33.139][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:33.140][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:33.141][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:33.142][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:33.143][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:33.144][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:33.145][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:33.146][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:33.147][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:33.148][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:33.149][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:33.150][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:33.151][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:33.152][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:33.153][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:33.153][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:33.154][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:33.155][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:33.156][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:33.157][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:33.158][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:33.159][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:33.160][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:33.161][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:33.162][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:33.163][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:33.164][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:33.165][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:33.166][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:33.167][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:33.168][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:33.168][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:33.169][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:33.170][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:33.171][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:33.172][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:33.173][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:33.174][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:33.175][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:33.176][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:33.177][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:33.178][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:33.179][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:33.180][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:33.181][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:33.182][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:33.183][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:33.183][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:33.184][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:33.185][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:33.186][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:33.187][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:33.188][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:33.189][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:33.190][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:33.191][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:33.192][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:33.193][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:33.194][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:33.195][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:33.196][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:33.197][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:33.198][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:33.198][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:33.199][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:33.200][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:33.201][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:33.202][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:33.203][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:33.204][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:33.205][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:33.206][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:33.207][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:04:33.208][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:33.209][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:33.210][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:33.211][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:04:33.212][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:33.213][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:33.213][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:33.214][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:04:33.215][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:33.216][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:33.217][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:33.218][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:33.219][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:33.220][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:33.221][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:33.222][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:33.223][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:33.224][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:33.225][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:33.226][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:33.227][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:33.228][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:33.228][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:33.230][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:33.231][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:33.231][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:33.232][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:33.233][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:33.234][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:33.235][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:33.236][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:33.237][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:33.238][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:33.239][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:33.240][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:33.246][private$entriesToListOfDataframes] Entry converted to data frame: [1, 12]: [accession, charge, chebi.id, formula, inchi, ...] [4781, 0, 4781, C29H40N2O4, InChI=1S/C29H40N2O4/c1-6-18-17-31-10-8-20-14-27(33-3)29(35-5)16-23(20)25(31)12-21(18)11-24-22-15-28(34-4)26(32-2)13-19(22)7-9-30-24/h13-16,18,21,24-25,30H,6-12,17H2,1-5H3/t18-,21-,24+,25-/m0/s1, ...].
biodb.DEBUG[2025-08-30 16:04:33.247][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:33.248][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:33.249][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:33.253][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:33.254][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:33.255][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:33.256][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:33.257][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:33.258][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:33.259][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:33.260][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:33.261][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:33.262][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:33.263][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:33.264][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:33.264][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:33.265][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:33.266][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:33.267][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:33.268][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:33.269][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:33.270][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:33.271][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:33.272][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:33.273][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:33.274][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:33.275][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:33.276][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:33.277][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:33.278][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:33.279][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:33.279][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:33.281][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:33.281][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:33.282][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:33.283][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:33.284][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:33.285][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:33.286][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:33.287][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:33.288][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:33.289][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:33.290][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:33.291][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:33.292][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:33.293][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:33.294][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:33.295][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:33.296][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:33.297][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:33.297][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:33.298][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:33.299][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:33.300][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:33.301][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:33.302][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:33.303][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:33.304][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:33.305][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:33.306][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:33.307][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:33.308][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:33.309][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:33.310][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:33.311][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:33.312][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:33.313][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:33.314][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:33.315][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:33.315][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:33.316][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:33.317][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:33.318][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:33.319][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:33.320][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:33.321][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:33.322][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:33.323][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:33.324][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:33.325][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:04:33.326][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:33.327][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:33.328][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:33.329][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:04:33.330][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:33.331][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:33.332][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:33.333][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:33.334][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:33.334][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:33.335][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:33.336][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:33.337][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:33.338][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:33.339][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:33.340][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:33.341][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:33.342][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:33.343][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:33.344][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:33.345][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:33.346][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:33.347][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:33.348][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.attr.
biodb.TRACE[2025-08-30 16:04:33.349][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.attr.
biodb.TRACE[2025-08-30 16:04:33.350][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:33.350][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:33.351][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.attr.
biodb.TRACE[2025-08-30 16:04:33.352][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.attr.
biodb.TRACE[2025-08-30 16:04:33.353][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:33.354][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:33.355][private$selectFields] Fields [13]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2025-08-30 16:04:33.356][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:04:33.357][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:04:33.358][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:04:33.359][private$selectFields] Fields [13]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2025-08-30 16:04:33.360][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:33.361][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:33.362][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:33.362][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:33.363][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:33.364][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:33.365][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:33.366][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:33.367][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:33.368][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:33.369][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:33.370][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:33.371][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:33.372][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:33.373][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:33.374][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:33.375][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:33.376][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:33.376][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:33.377][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:33.378][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:33.379][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:33.380][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:33.381][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:33.382][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:33.383][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:33.384][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:33.385][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:33.386][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:33.387][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:33.388][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:33.389][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:33.389][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:33.390][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:33.391][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:33.392][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:33.393][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:04:33.394][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:33.395][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:33.396][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:33.397][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:33.398][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:33.399][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:33.400][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:33.401][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:33.402][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:33.403][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:33.403][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:33.404][ef$get] Asked field names are: peak.attr.
biodb.TRACE[2025-08-30 16:04:33.405][ef$get] Realnames of fields are: peak.attr.
biodb.TRACE[2025-08-30 16:04:33.406][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:33.407][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:33.408][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:33.409][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:33.410][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:33.411][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:33.412][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:33.413][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:33.414][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:33.415][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:33.416][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:33.417][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:33.418][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:33.418][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:33.419][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:33.420][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:33.421][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:33.422][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:33.423][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:33.424][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:33.425][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:33.426][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:33.427][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:33.428][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:33.429][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:33.430][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:33.431][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:33.432][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:33.432][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:33.433][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:33.434][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:33.435][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:33.436][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:33.437][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:33.438][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:33.439][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:33.440][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:33.445][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:33.446][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:04:33.447][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:33.448][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:33.449][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:33.450][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:33.451][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:33.452][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:33.453][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:33.454][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:33.455][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:33.456][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:33.457][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:33.458][ef$get] Asked field names are: peak.attr.
biodb.TRACE[2025-08-30 16:04:33.459][ef$get] Realnames of fields are: peak.attr.
biodb.TRACE[2025-08-30 16:04:33.459][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:33.460][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:33.461][private$selectFields] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2025-08-30 16:04:33.462][private$organizeFieldsByGroups] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2025-08-30 16:04:33.463][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:33.464][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:33.465][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:33.466][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:33.467][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:33.468][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:33.469][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:33.470][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:33.470][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:33.471][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:33.472][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:33.473][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:33.474][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:33.475][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:33.476][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:33.477][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:33.478][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:33.479][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:33.480][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:33.481][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:33.481][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:33.482][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:33.483][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:33.484][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:33.485][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:33.486][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:33.487][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:33.488][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:33.489][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:33.490][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:33.491][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:33.492][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:33.492][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:33.493][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:33.494][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:33.495][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:33.496][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:04:33.497][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:33.498][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:33.499][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:33.500][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:33.501][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:33.502][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:33.503][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:33.503][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:33.504][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:33.505][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:33.506][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:33.507][private$organizeFieldsByGroups] Groups [2]: "c("accession", "charge", "chebi.id", "formula", "inchi", "inchikey", "kegg.compound.id", "molecular.mass", "monoisotopic.mass", "n.stars", "name", "smiles"), list()"
biodb.TRACE[2025-08-30 16:04:33.508][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:33.509][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:33.510][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:33.511][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:33.512][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:33.513][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:33.514][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:33.515][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:33.516][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:33.517][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:33.517][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:33.518][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:33.519][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:33.520][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:33.521][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:33.522][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:33.523][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:33.524][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:33.525][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:33.526][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:33.527][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:33.528][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:33.529][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:33.530][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:33.531][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:33.532][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:33.533][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:33.534][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:33.535][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:33.536][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:33.536][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:33.537][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:33.538][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:33.539][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:33.540][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:33.541][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:33.542][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:33.543][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:33.544][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:33.545][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:33.546][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:33.547][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:33.548][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:33.549][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:33.550][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:33.551][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:33.551][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:33.552][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:33.553][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:33.554][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:33.555][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:33.556][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:33.557][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:33.558][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:33.559][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:33.560][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:33.561][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:33.562][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:33.563][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:33.564][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:33.565][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:33.566][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:33.567][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:33.567][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:33.568][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:33.569][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:33.570][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:33.571][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:33.572][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:33.573][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:33.574][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:33.575][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:33.576][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:33.577][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:33.578][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:33.579][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:33.580][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:33.581][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:33.582][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:33.583][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:33.583][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:33.584][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:33.585][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:33.586][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:33.587][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:33.588][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:33.589][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:33.590][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:33.591][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:33.592][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:33.593][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:33.594][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:33.595][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:33.596][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:33.597][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:33.598][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:33.599][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:33.600][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:33.601][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:33.602][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:33.603][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:33.604][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:33.605][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:33.605][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:33.606][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:33.607][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:33.608][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:33.609][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:33.610][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:04:33.611][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:33.612][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:33.613][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:33.614][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:04:33.615][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:33.616][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:33.617][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:33.618][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:04:33.619][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:33.620][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:33.621][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:33.622][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:33.623][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:33.624][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:33.625][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:33.626][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:33.627][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:33.628][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:33.628][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:33.629][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:33.630][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:33.631][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:33.632][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:33.633][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:33.634][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:33.635][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:33.636][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:33.637][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:33.638][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:33.639][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:33.640][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:33.641][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:33.642][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:33.643][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:33.644][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:33.650][private$entriesToListOfDataframes] Entry converted to data frame: [1, 12]: [accession, charge, chebi.id, formula, inchi, ...] [16587, 0, 16587, C27H44O7, InChI=1S/C27H44O7/c1-23(2,32)9-8-22(31)26(5,33)21-7-11-27(34)16-12-18(28)17-13-19(29)20(30)14-24(17,3)15(16)6-10-25(21,27)4/h12,15,17,19-22,29-34H,6-11,13-14H2,1-5H3/t15-,17-,19+,20-,21-,22+,24+,25+,26+,27+/m0/s1, ...].
biodb.DEBUG[2025-08-30 16:04:33.651][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:33.652][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:33.653][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:33.657][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:33.658][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:33.659][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:33.660][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:33.661][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:33.662][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:33.663][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:33.664][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:33.665][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:33.666][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:33.667][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:33.667][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:33.668][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:33.669][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:33.670][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:33.671][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:33.672][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:33.673][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:33.674][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:33.675][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:33.676][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:33.677][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:33.678][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:33.679][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:33.680][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:33.681][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:33.682][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:33.682][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:33.683][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:33.684][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:33.685][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:33.686][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:33.687][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:33.688][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:33.689][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:33.690][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:33.691][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:33.692][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:33.693][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:33.694][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:33.695][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:33.696][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:33.697][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:33.697][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:33.698][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:33.699][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:33.700][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:33.701][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:33.702][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:33.703][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:33.704][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:33.705][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:33.706][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:33.707][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:33.708][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:33.709][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:33.710][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:33.711][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:33.712][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:33.713][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:33.713][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:33.714][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:33.715][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:33.716][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:33.717][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:33.718][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:33.719][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:33.720][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:33.721][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:33.722][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:33.723][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:33.724][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:33.725][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:33.726][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:33.727][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:33.728][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:33.729][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:04:33.730][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:33.731][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:33.731][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:33.732][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:04:33.733][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:33.734][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:33.735][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:33.736][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:33.737][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:33.738][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:33.739][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:33.740][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:33.741][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:33.742][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:33.743][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:33.744][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:33.745][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:33.746][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:33.747][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:33.747][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:33.748][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:33.749][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:33.750][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:33.751][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.attr.
biodb.TRACE[2025-08-30 16:04:33.752][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.attr.
biodb.TRACE[2025-08-30 16:04:33.757][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:33.759][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:33.760][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.attr.
biodb.TRACE[2025-08-30 16:04:33.761][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.attr.
biodb.TRACE[2025-08-30 16:04:33.762][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:33.763][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:33.763][private$selectFields] Fields [13]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2025-08-30 16:04:33.764][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:04:33.765][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:04:33.766][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:04:33.767][private$selectFields] Fields [13]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2025-08-30 16:04:33.768][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:33.769][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:33.770][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:33.771][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:33.772][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:33.773][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:33.774][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:33.774][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:33.775][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:33.776][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:33.777][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:33.778][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:33.779][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:33.780][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:33.781][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:33.782][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:33.783][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:33.784][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:33.785][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:33.785][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:33.786][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:33.787][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:33.788][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:33.789][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:33.790][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:33.791][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:33.792][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:33.793][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:33.794][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:33.795][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:33.796][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:33.796][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:33.797][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:33.798][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:33.799][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:33.800][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:33.801][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:04:33.802][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:33.803][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:33.804][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:33.805][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:33.806][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:33.807][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:33.808][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:33.808][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:33.809][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:33.810][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:33.811][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:33.812][ef$get] Asked field names are: peak.attr.
biodb.TRACE[2025-08-30 16:04:33.813][ef$get] Realnames of fields are: peak.attr.
biodb.TRACE[2025-08-30 16:04:33.814][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:33.815][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:33.816][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:33.817][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:33.818][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:33.819][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:33.820][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:33.820][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:33.821][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:33.822][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:33.823][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:33.824][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:33.825][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:33.826][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:33.827][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:33.828][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:33.829][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:33.830][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:33.831][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:33.832][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:33.832][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:33.833][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:33.834][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:33.835][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:33.836][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:33.837][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:33.838][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:33.839][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:33.840][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:33.841][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:33.842][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:33.843][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:33.843][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:33.844][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:33.845][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:33.846][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:33.847][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:33.848][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:33.849][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:04:33.850][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:33.851][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:33.852][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:33.853][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:33.854][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:33.855][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:33.855][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:33.856][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:33.857][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:33.858][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:33.859][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:33.860][ef$get] Asked field names are: peak.attr.
biodb.TRACE[2025-08-30 16:04:33.861][ef$get] Realnames of fields are: peak.attr.
biodb.TRACE[2025-08-30 16:04:33.862][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:33.863][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:33.864][private$selectFields] Fields [11]: "accession, charge, chebi.id, formula, inchi, inchikey, molecular.mass, monoisotopic.mass, n.stars, name, ..."
biodb.TRACE[2025-08-30 16:04:33.865][private$organizeFieldsByGroups] Fields [11]: "accession, charge, chebi.id, formula, inchi, inchikey, molecular.mass, monoisotopic.mass, n.stars, name, ..."
biodb.TRACE[2025-08-30 16:04:33.866][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:33.867][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:33.868][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:33.868][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:33.869][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:33.870][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:33.871][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:33.872][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:33.873][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:33.874][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:33.875][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:33.876][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:33.877][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:33.878][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:33.879][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:33.880][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:33.880][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:33.881][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:33.882][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:33.883][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:33.884][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:33.885][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:33.886][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:33.887][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:33.888][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:33.889][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:33.890][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:33.891][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:33.891][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:33.892][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:33.893][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:33.894][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:33.895][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:04:33.896][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:33.897][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:33.898][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:33.899][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:33.900][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:33.901][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:33.902][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:33.903][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:33.904][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:33.905][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:33.905][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:33.906][private$organizeFieldsByGroups] Groups [2]: "c("accession", "charge", "chebi.id", "formula", "inchi", "inchikey", "molecular.mass", "monoisotopic.mass", "n.stars", "name", "smiles"), list()"
biodb.TRACE[2025-08-30 16:04:33.907][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:33.908][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:33.909][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:33.910][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:33.911][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:33.912][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:33.913][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:33.914][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:33.915][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:33.916][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:33.917][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:33.918][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:33.919][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:33.920][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:33.921][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:33.922][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:33.923][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:33.924][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:33.925][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:33.926][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:33.927][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:33.928][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:33.928][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:33.929][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:33.930][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:33.931][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:33.932][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:33.933][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:33.934][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:33.935][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:33.936][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:33.937][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:33.938][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:33.939][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:33.940][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:33.941][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:33.942][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:33.943][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:33.944][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:33.945][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:33.946][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:33.947][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:33.948][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:33.948][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:33.949][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:33.950][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:33.951][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:33.952][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:33.953][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:33.954][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:33.955][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:33.956][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:33.957][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:33.958][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:33.959][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:33.960][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:33.961][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:33.962][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:33.963][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:33.964][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:33.965][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:33.966][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:33.967][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:33.968][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:33.969][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:33.970][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:33.970][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:33.971][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:33.972][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:33.973][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:33.974][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:33.975][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:33.976][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:33.977][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:33.978][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:33.979][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:33.980][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:33.981][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:33.982][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:33.983][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:33.984][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:33.985][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:33.986][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:33.987][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:33.988][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:33.989][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:33.990][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:33.990][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:33.991][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:33.992][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:33.993][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:33.994][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:33.995][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:33.996][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:33.997][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:33.998][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:33.999][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:04:34.000][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:34.001][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:34.002][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:34.003][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:04:34.004][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:34.005][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:34.006][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:34.007][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:04:34.008][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:34.008][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:34.009][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:34.010][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:34.011][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:34.012][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:34.013][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:34.014][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:34.015][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:34.016][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:34.017][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:34.018][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:34.019][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:34.020][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:34.021][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:34.022][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:34.023][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:34.024][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:34.025][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:34.026][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:34.027][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:34.028][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:34.028][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:34.029][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:34.030][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:34.031][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:34.032][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:34.038][private$entriesToListOfDataframes] Entry converted to data frame: [1, 11]: [accession, charge, chebi.id, formula, inchi, ...] [19804, 0, 19804, C27H44O7, InChI=1S/C27H44O7/c1-23(2,32)8-5-9-26(33,15-28)22-7-11-27(34)17-12-19(29)18-13-20(30)21(31)14-24(18,3)16(17)6-10-25(22,27)4/h12,16,18,20-22,28,30-34H,5-11,13-15H2,1-4H3/t16-,18-,20+,21-,22-,24+,25+,26+,27+/m0/s1, ...].
biodb.DEBUG[2025-08-30 16:04:34.039][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-08-30 16:04:34.040][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2025-08-30 16:04:34.043][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:34.044][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:34.045][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:34.049][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:34.050][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:34.051][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:34.052][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:04:34.054][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.38*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-08-30 16:04:34.057][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-08-30 16:04:34.058][cch$loadFileContent] Trying to load 1 files from cache: [1]: "26d0872875c47c33e8205aa7124e0486".
biodb.TRACE[2025-08-30 16:04:34.059][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-08-30 16:04:34.061][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/26d0872875c47c33e8205aa7124e0486.content".
biodb.DEBUG[2025-08-30 16:04:34.063][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:34.064][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:34.065][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:34.073][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:34.074][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:34.075][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:34.076][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:34.077][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:34.078][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:34.079][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:34.080][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:34.081][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:34.082][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:34.083][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:34.084][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:34.085][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:34.086][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:34.086][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:34.087][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:34.088][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:34.089][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:34.090][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:34.094][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:34.095][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:34.096][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:34.096][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:34.097][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:34.098][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:34.099][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:34.100][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:34.101][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:34.102][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:34.103][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:34.104][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:34.105][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:34.106][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:34.107][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:34.108][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:34.109][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:34.110][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:34.110][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:34.114][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:34.115][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:34.116][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:34.117][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:34.118][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:34.119][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:34.120][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:34.121][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:34.122][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:34.123][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:34.123][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:34.124][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:34.125][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:34.126][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:34.127][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:34.128][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:34.129][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:34.130][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:34.131][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:34.135][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:34.135][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:34.136][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:34.137][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:34.138][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:34.139][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:34.140][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:34.141][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:34.142][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:34.143][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:34.144][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:34.145][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:34.146][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:34.147][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:34.148][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:34.148][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:34.149][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:34.150][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:34.151][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:34.155][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:34.156][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:34.157][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:34.157][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:34.159][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:34.160][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:34.160][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:34.161][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:34.162][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:34.163][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:34.164][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:34.165][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:34.166][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:34.167][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:34.168][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:34.169][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:34.170][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:34.171][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:34.171][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:34.175][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:34.176][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:34.177][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:34.178][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:34.179][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:34.180][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:34.181][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:34.182][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:34.183][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:34.184][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:34.184][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:34.185][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:34.186][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:34.187][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:34.188][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:34.189][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:34.190][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:34.191][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:34.192][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:34.196][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:34.196][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:34.197][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:34.198][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:34.199][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:34.200][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:34.201][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:34.202][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:34.203][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:34.204][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:34.205][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:34.206][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:34.207][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:34.208][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:34.209][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:34.209][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:34.210][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:34.211][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:34.212][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:34.216][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:34.217][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:34.218][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:34.219][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:34.220][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:34.221][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:34.222][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:34.223][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:34.223][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:34.224][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:34.225][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:34.226][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:34.227][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:34.228][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:34.229][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:34.230][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:34.232][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-08-30 16:04:34.235][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-08-30 16:04:34.236][cch$loadFileContent] Trying to load 1 files from cache: [1]: "357534c211a0779cb44e196fcebae6c0".
biodb.TRACE[2025-08-30 16:04:34.237][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-08-30 16:04:34.238][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/357534c211a0779cb44e196fcebae6c0.content".
biodb.DEBUG[2025-08-30 16:04:34.241][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:34.241][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:34.242][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:34.246][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:34.247][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:34.248][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:34.249][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:34.250][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:34.251][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:34.252][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:34.253][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:34.254][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:34.255][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:34.255][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:34.256][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:34.257][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:34.258][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:34.259][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:34.260][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:34.261][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:34.262][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:34.263][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:34.267][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:34.268][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:34.268][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:34.269][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:34.270][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:34.271][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:34.272][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:34.273][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:34.274][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:34.275][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:34.276][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:34.277][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:34.278][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:34.279][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:34.280][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:34.281][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:34.282][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:34.283][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:34.283][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:34.287][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:34.288][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:34.289][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:34.290][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:34.291][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:34.292][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:34.293][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:34.294][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:34.295][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:34.296][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:34.297][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:34.297][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:34.298][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:34.299][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:34.300][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:34.301][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:34.302][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-08-30 16:04:34.304][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:34.305][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:34.305][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:34.309][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:34.310][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:34.311][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:34.312][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:34.313][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:34.314][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:34.315][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:34.316][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:34.317][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:34.318][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:34.319][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:34.320][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:34.321][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:34.322][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:34.322][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:34.323][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:34.324][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:34.325][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:34.326][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:34.327][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:34.328][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:34.329][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:34.330][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:34.331][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:34.332][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:34.333][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:34.334][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:34.335][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:34.336][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:34.337][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:34.338][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:34.338][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:34.339][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:34.340][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:34.341][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:34.342][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:34.343][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:34.344][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:34.345][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:34.346][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:34.347][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:34.348][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:34.349][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:34.350][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:34.351][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:34.352][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:34.353][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:34.354][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:34.354][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:34.355][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:34.356][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:34.357][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:34.358][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:34.359][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:34.360][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:34.361][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:34.362][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:34.363][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:34.364][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:34.365][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:34.366][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:34.367][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:34.368][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:34.369][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:34.370][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:34.371][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:34.372][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:34.373][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:34.373][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:34.375][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:34.375][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:34.376][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:34.377][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:34.378][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:34.384][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:34.385][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:34.386][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:04:34.387][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:34.388][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:34.389][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:34.390][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:04:34.391][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:34.392][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:34.393][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:34.394][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:34.395][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:34.396][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:34.396][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:34.397][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:34.398][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:34.399][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:34.400][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:34.401][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:34.402][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:34.403][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:34.404][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:34.405][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:34.406][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:34.407][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:34.408][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:34.409][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.attr.
biodb.TRACE[2025-08-30 16:04:34.410][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.attr.
biodb.TRACE[2025-08-30 16:04:34.410][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:34.411][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:34.412][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.attr.
biodb.TRACE[2025-08-30 16:04:34.413][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.attr.
biodb.TRACE[2025-08-30 16:04:34.414][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:34.415][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:34.416][private$selectFields] Fields [13]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2025-08-30 16:04:34.417][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:04:34.418][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:04:34.419][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:04:34.420][private$selectFields] Fields [13]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2025-08-30 16:04:34.421][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:34.422][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:34.422][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:34.423][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:34.424][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:34.425][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:34.426][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:34.427][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:34.428][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:34.429][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:34.430][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:34.431][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:34.432][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:34.433][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:34.433][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:34.434][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:34.435][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:34.436][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:34.437][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:34.438][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:34.439][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:34.440][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:34.441][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:34.442][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:34.443][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:34.444][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:34.445][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:34.445][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:34.446][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:34.447][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:34.448][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:34.449][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:34.450][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:34.451][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:34.452][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:34.453][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:34.454][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:04:34.455][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:34.456][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:34.456][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:34.457][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:34.458][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:34.459][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:34.460][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:34.461][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:34.462][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:34.463][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:34.464][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:34.465][ef$get] Asked field names are: peak.attr.
biodb.TRACE[2025-08-30 16:04:34.466][ef$get] Realnames of fields are: peak.attr.
biodb.TRACE[2025-08-30 16:04:34.467][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:34.467][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:34.468][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:34.469][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:34.470][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:34.471][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:34.472][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:34.473][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:34.474][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:34.475][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:34.476][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:34.477][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:34.478][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:34.479][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:34.479][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:34.480][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:34.481][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:34.482][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:34.483][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:34.484][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:34.485][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:34.486][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:34.487][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:34.488][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:34.489][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:34.490][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:34.491][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:34.492][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:34.492][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:34.493][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:34.494][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:34.495][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:34.496][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:34.497][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:34.498][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:34.499][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:34.500][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:34.501][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:34.502][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:04:34.503][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:34.503][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:34.504][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:34.505][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:34.506][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:34.507][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:34.508][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:34.509][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:34.510][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:34.511][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:34.512][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:34.513][ef$get] Asked field names are: peak.attr.
biodb.TRACE[2025-08-30 16:04:34.514][ef$get] Realnames of fields are: peak.attr.
biodb.TRACE[2025-08-30 16:04:34.515][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:34.515][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:34.516][private$selectFields] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2025-08-30 16:04:34.517][private$organizeFieldsByGroups] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2025-08-30 16:04:34.518][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:34.519][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:34.520][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:34.521][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:34.522][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:34.523][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:34.524][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:34.525][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:34.526][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:34.527][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:34.528][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:34.528][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:34.529][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:34.530][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:34.531][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:34.532][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:34.533][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:34.534][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:34.535][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:34.536][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:34.537][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:34.538][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:34.539][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:34.540][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:34.541][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:34.542][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:34.543][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:34.543][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:34.544][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:34.545][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:34.546][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:34.547][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:34.548][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:34.549][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:34.550][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:34.551][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:34.552][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:04:34.553][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:34.554][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:34.555][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:34.556][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:34.557][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:34.558][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:34.558][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:34.559][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:34.560][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:34.561][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:34.562][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:34.563][private$organizeFieldsByGroups] Groups [2]: "c("accession", "charge", "chebi.id", "formula", "inchi", "inchikey", "kegg.compound.id", "molecular.mass", "monoisotopic.mass", "n.stars", "name", "smiles"), list()"
biodb.TRACE[2025-08-30 16:04:34.564][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:34.565][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:34.566][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:34.567][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:34.568][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:34.569][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:34.570][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:34.571][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:34.572][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:34.573][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:34.574][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:34.574][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:34.576][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:34.577][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:34.578][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:34.578][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:34.579][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:34.580][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:34.581][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:34.582][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:34.583][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:34.584][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:34.585][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:34.586][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:34.587][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:34.588][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:34.589][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:34.590][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:34.591][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:34.592][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:34.593][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:34.594][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:34.595][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:34.596][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:34.596][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:34.597][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:34.598][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:34.599][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:34.600][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:34.601][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:34.602][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:34.603][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:34.604][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:34.605][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:34.606][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:34.607][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:34.608][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:34.609][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:34.610][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:34.611][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:34.612][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:34.613][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:34.614][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:34.615][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:34.615][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:34.616][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:34.617][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:34.618][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:34.619][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:34.620][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:34.621][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:34.622][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:34.623][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:34.624][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:34.625][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:34.626][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:34.627][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:34.628][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:34.629][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:34.630][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:34.631][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:34.632][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:34.633][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:34.634][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:34.635][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:34.635][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:34.636][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:34.637][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:34.638][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:34.639][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:34.640][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:34.641][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:34.642][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:34.643][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:34.644][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:34.645][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:34.646][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:34.647][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:34.648][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:34.649][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:34.650][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:34.651][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:34.652][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:34.653][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:34.653][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:34.654][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:34.655][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:34.657][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:34.657][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:34.658][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:34.659][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:34.660][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:34.661][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:34.662][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:34.663][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:34.664][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:34.665][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:34.666][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:34.667][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:04:34.668][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:34.669][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:34.670][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:34.671][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:04:34.672][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:34.673][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:34.674][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:34.674][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:04:34.675][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:34.676][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:34.677][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:34.678][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:34.679][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:34.680][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:34.681][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:34.682][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:34.683][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:34.684][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:34.685][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:34.686][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:34.687][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:34.688][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:34.689][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:34.690][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:34.691][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:34.692][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:34.697][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:34.698][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:34.700][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:34.700][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:34.701][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:34.702][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:34.703][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:34.704][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:34.705][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:34.712][private$entriesToListOfDataframes] Entry converted to data frame: [1, 12]: [accession, charge, chebi.id, formula, inchi, ...] [7799, 0, 7799, C16H31N2O8P, InChI=1S/C16H28N2O4.H3O4P/c1-5-12(6-2)22-14-9-11(16(20)21-7-3)8-13(17)15(14)18-10(4)19;1-5(2,3)4/h9,12-15H,5-8,17H2,1-4H3,(H,18,19);(H3,1,2,3,4)/t13-,14+,15+;/m0./s1, ...].
biodb.DEBUG[2025-08-30 16:04:34.713][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:34.713][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:34.714][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:34.718][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:34.719][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:34.720][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:34.721][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:34.722][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:34.723][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:34.724][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:34.725][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:34.726][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:34.727][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:34.728][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:34.729][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:34.730][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:34.731][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:34.731][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:34.732][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:34.733][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:34.734][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:34.735][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:34.736][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:34.737][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:34.738][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:34.739][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:34.740][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:34.741][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:34.742][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:34.743][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:34.743][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:34.744][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:34.745][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:34.746][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:34.747][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:34.748][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:34.749][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:34.750][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:34.751][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:34.752][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:34.753][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:34.754][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:34.755][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:34.755][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:34.756][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:34.757][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:34.758][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:34.759][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:34.760][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:34.761][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:34.762][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:34.763][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:34.764][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:34.765][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:34.766][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:34.767][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:34.768][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:34.769][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:34.769][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:34.770][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:34.771][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:34.772][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:34.773][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:34.774][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:34.775][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:34.776][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:34.777][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:34.778][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:34.779][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:34.780][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:34.781][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:34.782][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:34.783][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:34.783][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:34.784][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:34.785][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:34.786][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:34.787][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:34.788][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:34.789][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:04:34.790][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:34.791][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:34.792][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:34.793][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:04:34.794][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:34.795][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:34.796][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:34.797][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:34.798][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:34.798][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:34.799][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:34.800][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:34.801][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:34.802][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:34.803][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:34.804][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:34.805][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:34.806][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:34.807][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:34.808][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:34.809][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:34.810][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:34.810][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:34.811][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.attr.
biodb.TRACE[2025-08-30 16:04:34.812][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.attr.
biodb.TRACE[2025-08-30 16:04:34.813][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:34.814][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:34.815][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.attr.
biodb.TRACE[2025-08-30 16:04:34.816][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.attr.
biodb.TRACE[2025-08-30 16:04:34.817][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:34.818][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:34.819][private$selectFields] Fields [13]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2025-08-30 16:04:34.820][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:04:34.821][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:04:34.822][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:04:34.823][private$selectFields] Fields [13]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2025-08-30 16:04:34.823][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:34.824][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:34.825][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:34.826][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:34.827][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:34.828][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:34.829][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:34.830][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:34.831][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:34.832][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:34.833][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:34.834][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:34.835][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:34.836][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:34.836][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:34.837][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:34.838][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:34.839][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:34.840][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:34.841][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:34.842][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:34.843][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:34.844][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:34.845][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:34.846][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:34.847][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:34.848][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:34.849][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:34.850][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:34.851][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:34.851][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:34.852][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:34.853][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:34.854][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:34.855][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:34.856][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:34.857][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:04:34.858][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:34.859][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:34.860][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:34.861][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:34.862][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:34.863][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:34.864][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:34.865][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:34.866][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:34.866][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:34.867][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:34.868][ef$get] Asked field names are: peak.attr.
biodb.TRACE[2025-08-30 16:04:34.869][ef$get] Realnames of fields are: peak.attr.
biodb.TRACE[2025-08-30 16:04:34.870][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:34.871][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:34.872][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:34.873][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:34.874][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:34.875][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:34.876][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:34.877][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:34.878][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:34.879][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:34.880][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:34.881][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:34.881][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:34.882][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:34.883][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:34.884][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:34.885][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:34.886][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:34.887][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:34.888][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:34.889][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:34.890][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:34.891][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:34.892][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:34.893][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:34.893][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:34.894][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:34.895][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:34.896][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:34.897][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:34.898][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:34.899][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:34.900][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:34.901][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:34.902][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:34.903][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:34.904][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:34.905][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:34.906][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:04:34.907][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:34.908][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:34.908][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:34.909][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:34.910][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:34.911][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:34.912][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:34.913][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:34.914][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:34.915][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:34.916][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:34.917][ef$get] Asked field names are: peak.attr.
biodb.TRACE[2025-08-30 16:04:34.918][ef$get] Realnames of fields are: peak.attr.
biodb.TRACE[2025-08-30 16:04:34.919][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:34.920][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:34.921][private$selectFields] Fields [11]: "accession, charge, chebi.id, formula, inchi, inchikey, molecular.mass, monoisotopic.mass, n.stars, name, ..."
biodb.TRACE[2025-08-30 16:04:34.921][private$organizeFieldsByGroups] Fields [11]: "accession, charge, chebi.id, formula, inchi, inchikey, molecular.mass, monoisotopic.mass, n.stars, name, ..."
biodb.TRACE[2025-08-30 16:04:34.922][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:34.923][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:34.924][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:34.925][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:34.926][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:34.927][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:34.928][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:34.929][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:34.930][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:34.931][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:34.932][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:34.933][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:34.934][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:34.935][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:34.935][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:34.936][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:34.937][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:34.938][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:34.939][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:34.940][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:34.941][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:34.942][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:34.943][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:34.944][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:34.945][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:34.946][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:34.947][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:34.947][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:34.948][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:34.949][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:34.950][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:34.951][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:34.952][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:04:34.953][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:34.954][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:34.955][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:34.956][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:34.957][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:34.958][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:34.959][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:34.960][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:34.961][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:34.962][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:34.962][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:34.963][private$organizeFieldsByGroups] Groups [2]: "c("accession", "charge", "chebi.id", "formula", "inchi", "inchikey", "molecular.mass", "monoisotopic.mass", "n.stars", "name", "smiles"), list()"
biodb.TRACE[2025-08-30 16:04:34.964][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:34.965][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:34.966][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:34.967][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:34.968][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:34.969][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:34.970][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:34.971][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:34.972][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:34.973][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:34.974][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:34.975][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:34.976][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:34.977][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:34.978][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:34.979][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:34.980][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:34.981][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:34.982][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:34.982][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:34.983][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:34.984][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:34.985][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:34.986][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:34.987][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:34.988][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:34.989][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:34.990][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:34.991][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:34.992][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:34.993][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:34.994][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:34.995][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:34.996][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:34.997][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:34.998][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:34.999][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:35.000][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:35.001][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:35.002][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:35.003][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:35.004][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:35.009][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:35.010][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:35.011][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:35.012][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:35.013][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:35.014][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:35.015][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:35.016][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:35.017][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:35.018][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:35.019][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:35.020][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:35.021][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:35.021][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:35.022][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:35.023][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:35.024][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:35.025][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:35.026][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:35.027][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:35.028][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:35.029][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:35.030][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:35.031][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:35.032][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:35.033][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:35.034][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:35.035][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:35.035][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:35.036][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:35.037][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:35.038][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:35.039][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:35.040][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:35.041][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:35.042][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:35.043][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:35.044][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:35.045][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:35.046][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:35.047][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:35.048][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:35.049][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:35.050][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:35.051][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:35.051][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:35.052][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:35.053][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:35.054][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:35.055][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:35.056][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:35.057][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:35.058][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:35.059][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:35.060][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:04:35.061][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:35.062][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:35.063][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:35.064][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:04:35.065][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:35.066][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:35.066][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:35.067][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:04:35.068][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:35.069][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:35.070][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:35.071][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:35.072][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:35.073][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:35.074][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:35.075][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:35.076][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:35.077][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:35.078][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:35.079][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:35.080][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:35.080][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:35.081][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:35.082][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:35.083][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:35.084][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:35.085][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:35.086][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:35.087][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:35.088][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:35.089][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:35.090][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:35.091][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:35.092][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:35.093][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:35.099][private$entriesToListOfDataframes] Entry converted to data frame: [1, 11]: [accession, charge, chebi.id, formula, inchi, ...] [71954, 0, 71954, C18H21F3N6O2, InChI=1S/C18H21F3N6O2/c19-18(20,21)13-9-15(22)23-11-12(13)14-10-16(26-1-5-28-6-2-26)25-17(24-14)27-3-7-29-8-4-27/h9-11H,1-8H2,(H2,22,23), ...].
biodb.DEBUG[2025-08-30 16:04:35.100][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:35.100][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:35.101][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:35.105][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:35.106][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:35.107][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:35.108][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:35.109][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:35.110][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:35.111][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:35.112][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:35.113][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:35.114][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:35.115][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:35.116][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:35.117][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:35.118][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:35.118][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:35.119][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:35.120][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:35.121][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:35.122][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:35.123][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:35.124][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:35.125][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:35.126][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:35.127][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:35.128][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:35.129][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:35.130][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:35.131][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:35.132][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:35.133][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:35.133][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:35.134][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:35.135][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:35.136][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:35.137][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:35.138][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:35.139][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:35.140][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:35.141][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:35.142][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:35.143][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:35.144][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:35.145][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:35.146][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:35.146][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:35.147][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:35.148][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:35.149][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:35.150][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:35.151][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:35.152][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:35.153][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:35.154][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:35.155][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:35.156][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:35.157][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:35.158][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:35.159][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:35.160][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:35.161][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:35.162][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:35.163][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:35.164][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:35.164][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:35.165][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:35.166][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:35.167][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:35.168][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:35.169][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:35.170][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:35.171][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:35.172][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:35.173][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:35.174][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:35.175][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:35.176][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:35.177][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:04:35.178][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:35.179][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:35.180][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:35.181][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:04:35.182][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:35.183][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:35.183][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:35.184][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:35.185][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:35.186][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:35.187][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:35.188][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:35.189][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:35.190][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:35.191][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:35.192][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:35.193][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:35.194][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:35.195][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:35.196][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:35.197][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:35.198][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:35.198][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:35.199][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.attr.
biodb.TRACE[2025-08-30 16:04:35.200][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.attr.
biodb.TRACE[2025-08-30 16:04:35.201][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:35.202][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:35.203][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.attr.
biodb.TRACE[2025-08-30 16:04:35.204][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.attr.
biodb.TRACE[2025-08-30 16:04:35.205][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:35.206][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:35.207][private$selectFields] Fields [13]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2025-08-30 16:04:35.208][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:04:35.209][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:04:35.210][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:04:35.211][private$selectFields] Fields [13]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2025-08-30 16:04:35.212][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:35.213][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:35.213][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:35.214][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:35.215][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:35.216][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:35.217][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:35.218][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:35.219][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:35.220][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:35.221][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:35.222][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:35.223][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:35.224][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:35.225][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:35.226][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:35.227][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:35.228][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:35.228][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:35.229][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:35.230][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:35.231][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:35.232][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:35.233][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:35.234][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:35.235][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:35.236][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:35.237][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:35.238][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:35.239][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:35.240][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:35.240][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:35.241][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:35.242][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:35.243][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:35.244][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:35.245][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:04:35.246][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:35.247][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:35.248][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:35.249][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:35.250][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:35.251][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:35.252][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:35.253][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:35.254][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:35.254][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:35.255][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:35.256][ef$get] Asked field names are: peak.attr.
biodb.TRACE[2025-08-30 16:04:35.257][ef$get] Realnames of fields are: peak.attr.
biodb.TRACE[2025-08-30 16:04:35.258][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:35.259][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:35.260][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:35.261][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:35.262][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:35.263][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:35.264][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:35.265][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:35.266][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:35.267][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:35.267][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:35.268][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:35.269][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:35.270][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:35.271][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:35.272][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:35.273][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:35.274][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:35.275][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:35.276][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:35.277][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:35.278][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:35.279][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:35.280][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:35.281][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:35.281][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:35.282][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:35.283][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:35.284][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:35.285][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:35.286][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:35.287][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:35.288][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:35.289][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:35.290][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:35.291][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:35.292][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:35.293][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:35.294][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:04:35.295][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:35.295][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:35.296][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:35.297][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:35.298][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:35.299][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:35.300][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:35.301][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:35.302][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:35.303][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:35.304][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:35.305][ef$get] Asked field names are: peak.attr.
biodb.TRACE[2025-08-30 16:04:35.306][ef$get] Realnames of fields are: peak.attr.
biodb.TRACE[2025-08-30 16:04:35.307][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:35.308][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:35.309][private$selectFields] Fields [11]: "accession, charge, chebi.id, formula, inchi, inchikey, molecular.mass, monoisotopic.mass, n.stars, name, ..."
biodb.TRACE[2025-08-30 16:04:35.310][private$organizeFieldsByGroups] Fields [11]: "accession, charge, chebi.id, formula, inchi, inchikey, molecular.mass, monoisotopic.mass, n.stars, name, ..."
biodb.TRACE[2025-08-30 16:04:35.310][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:35.311][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:35.312][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:35.313][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:35.314][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:35.315][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:35.338][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:35.339][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:35.340][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:35.341][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:35.342][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:35.343][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:35.344][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:35.345][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:35.346][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:35.346][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:35.347][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:35.348][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:35.349][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:35.350][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:35.351][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:35.352][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:35.353][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:35.354][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:35.355][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:35.356][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:35.357][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:35.357][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:35.358][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:35.359][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:35.360][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:35.361][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:35.362][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:04:35.363][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:35.364][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:35.365][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:35.366][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:35.367][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:35.368][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:35.368][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:35.369][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:35.370][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:35.371][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:35.372][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:35.373][private$organizeFieldsByGroups] Groups [2]: "c("accession", "charge", "chebi.id", "formula", "inchi", "inchikey", "molecular.mass", "monoisotopic.mass", "n.stars", "name", "smiles"), list()"
biodb.TRACE[2025-08-30 16:04:35.374][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:35.375][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:35.376][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:35.377][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:35.378][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:35.379][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:35.380][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:35.381][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:35.382][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:35.383][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:35.383][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:35.384][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:35.385][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:35.386][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:35.387][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:35.388][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:35.389][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:35.390][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:35.391][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:35.392][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:35.393][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:35.394][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:35.395][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:35.396][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:35.397][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:35.398][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:35.399][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:35.399][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:35.400][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:35.401][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:35.402][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:35.403][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:35.404][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:35.405][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:35.406][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:35.407][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:35.408][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:35.409][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:35.410][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:35.411][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:35.412][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:35.413][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:35.414][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:35.414][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:35.415][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:35.416][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:35.417][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:35.418][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:35.419][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:35.420][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:35.421][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:35.422][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:35.423][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:35.424][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:35.425][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:35.426][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:35.427][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:35.428][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:35.429][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:35.429][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:35.430][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:35.431][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:35.432][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:35.433][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:35.434][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:35.435][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:35.436][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:35.437][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:35.438][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:35.439][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:35.440][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:35.441][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:35.442][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:35.443][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:35.444][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:35.445][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:35.445][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:35.446][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:35.447][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:35.448][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:35.449][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:35.450][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:35.451][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:35.452][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:35.453][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:35.454][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:35.455][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:35.456][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:35.457][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:35.458][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:35.459][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:35.460][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:35.461][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:35.462][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:35.463][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:35.464][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:35.465][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:04:35.466][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:35.467][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:35.467][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:35.468][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:04:35.469][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:35.470][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:35.471][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:35.472][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:04:35.473][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:35.474][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:35.475][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:35.476][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:35.477][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:35.478][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:35.479][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:35.480][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:35.481][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:35.482][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:35.483][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:35.484][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:35.485][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:35.486][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:35.487][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:35.488][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:35.489][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:35.490][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:35.491][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:35.492][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:35.493][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:35.494][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:35.494][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:35.495][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:35.497][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:35.497][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:35.498][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:35.505][private$entriesToListOfDataframes] Entry converted to data frame: [1, 11]: [accession, charge, chebi.id, formula, inchi, ...] [197612, 0, 197612, C18H18O9S, InChI=1S/C18H18O9S/c1-7-3-9(19)13-11(4-7)27-16-8(14(13)21)5-12(28-16)18(25,17(24)26-2)6-10(20)15(22)23/h3-4,10,12,19-20,25H,5-6H2,1-2H3,(H,22,23)/t10-,12+,18?/m1/s1, ...].
biodb.DEBUG[2025-08-30 16:04:35.506][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-08-30 16:04:35.507][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-08-30 16:04:35.512][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:35.513][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:35.514][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:35.515][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:35.516][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:35.517][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:35.518][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:35.519][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:35.520][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:35.521][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:35.522][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:35.523][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:35.524][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:35.525][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:35.526][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:35.527][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:35.528][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:35.529][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:35.530][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:35.531][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:35.532][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:35.533][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:35.534][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:35.535][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:35.536][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:35.537][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:35.538][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:35.539][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:35.540][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:35.541][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:35.542][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:35.543][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:35.544][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:35.545][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:35.545][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:35.546][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:35.547][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:35.548][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:35.549][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:35.550][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:35.551][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:35.552][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:35.553][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:35.554][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:35.555][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:35.556][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:35.557][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:35.558][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:35.561][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:35.562][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:35.563][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:35.567][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:35.568][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:35.569][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:35.570][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:04:35.572][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.38*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-08-30 16:04:35.575][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-08-30 16:04:35.577][cch$loadFileContent] Trying to load 1 files from cache: [1]: "49f51d93ac229648aa454636918ce386".
biodb.TRACE[2025-08-30 16:04:35.578][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-08-30 16:04:35.579][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/49f51d93ac229648aa454636918ce386.content".
biodb.DEBUG[2025-08-30 16:04:35.582][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-08-30 16:04:35.585][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-08-30 16:04:35.586][cch$loadFileContent] Trying to load 1 files from cache: [1]: "121ea95906eb67bed88948c362686e4f".
biodb.TRACE[2025-08-30 16:04:35.587][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-08-30 16:04:35.588][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/121ea95906eb67bed88948c362686e4f.content".
biodb.DEBUG[2025-08-30 16:04:35.591][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:35.591][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:35.592][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:35.596][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:35.597][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:35.598][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:35.599][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:35.600][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:35.601][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:35.602][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:35.603][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:35.604][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:35.605][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:35.606][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:35.607][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:35.608][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:35.609][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:35.610][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:35.611][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:35.612][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:35.612][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:35.613][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:35.617][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:35.618][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:35.619][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:35.620][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:35.621][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:35.622][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:35.623][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:35.624][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:35.625][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:35.626][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:35.627][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:35.628][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:35.629][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:35.630][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:35.631][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:35.632][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:35.633][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:35.634][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:35.634][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:35.639][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:35.639][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:35.640][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:35.641][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:35.642][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:35.643][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:35.644][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:35.645][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:35.646][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:35.647][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:35.648][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:35.649][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:35.650][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:35.651][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:35.657][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:35.658][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:35.659][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-08-30 16:04:35.661][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:35.661][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:35.662][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:35.666][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:35.667][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:35.668][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:35.669][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:35.670][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:35.671][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:35.672][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:35.673][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:35.674][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:35.675][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:35.676][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:35.677][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:35.678][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:35.679][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:35.680][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:35.680][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:35.681][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:35.682][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:35.683][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:35.684][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:35.685][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:35.686][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:35.687][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:35.688][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:35.689][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:35.690][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:35.691][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:35.692][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:35.693][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:35.694][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:35.695][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:35.695][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:35.696][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:35.697][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:35.698][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:35.699][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:35.700][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:35.701][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:35.702][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:35.703][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:35.704][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:35.705][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:35.706][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:35.707][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:35.708][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:35.709][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:35.709][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:35.710][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:35.711][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:35.712][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:35.713][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:35.714][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:35.715][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:35.716][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:35.717][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:35.718][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:35.719][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:35.720][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:35.721][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:35.722][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:35.722][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:35.723][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:35.724][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:35.725][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:35.726][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:35.727][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:35.728][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:35.729][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:35.730][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:35.731][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:35.732][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:35.733][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:35.734][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:35.735][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:35.736][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:35.736][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:35.737][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:04:35.738][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:35.739][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:35.740][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:35.741][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:04:35.742][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:35.743][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:35.744][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:35.745][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:35.746][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:35.747][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:35.748][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:35.749][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:35.750][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:35.750][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:35.751][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:35.752][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:35.753][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:35.754][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:35.755][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:35.756][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:35.757][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:35.758][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:35.759][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:35.760][private$selectFields] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2025-08-30 16:04:35.761][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:04:35.762][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:04:35.762][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:04:35.763][private$selectFields] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2025-08-30 16:04:35.764][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:35.765][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:35.766][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:35.767][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:35.768][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:35.769][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:35.770][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:35.771][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:35.772][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:35.773][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:35.774][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:35.775][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:35.775][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:35.776][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:35.777][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:35.778][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:35.779][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:35.780][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:35.781][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:35.782][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:35.783][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:35.784][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:35.785][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:35.786][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:35.787][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:35.788][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:35.788][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:35.789][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:35.790][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:35.791][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:35.792][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:35.793][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:35.794][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:35.795][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:35.796][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:35.797][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:35.798][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:04:35.799][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:35.800][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:35.801][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:35.801][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:35.802][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:35.803][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:35.804][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:35.805][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:35.806][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:35.807][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:35.808][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:35.809][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:35.810][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:35.811][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:35.812][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:35.813][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:35.814][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:35.815][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:35.816][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:35.817][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:35.818][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:35.818][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:35.819][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:35.820][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:35.821][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:35.822][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:35.823][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:35.824][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:35.825][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:35.826][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:35.827][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:35.828][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:35.829][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:35.830][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:35.831][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:35.832][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:35.833][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:35.833][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:35.834][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:35.835][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:35.836][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:35.837][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:35.838][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:35.839][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:35.840][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:35.841][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:35.842][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:35.843][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:04:35.844][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:35.845][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:35.846][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:35.846][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:35.847][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:35.848][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:35.849][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:35.850][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:35.851][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:35.852][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:35.853][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:35.854][private$selectFields] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2025-08-30 16:04:35.855][private$organizeFieldsByGroups] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2025-08-30 16:04:35.856][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:35.857][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:35.858][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:35.859][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:35.860][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:35.861][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:35.862][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:35.862][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:35.863][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:35.864][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:35.865][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:35.866][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:35.867][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:35.868][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:35.869][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:35.870][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:35.871][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:35.872][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:35.873][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:35.874][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:35.875][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:35.876][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:35.876][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:35.877][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:35.878][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:35.879][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:35.880][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:35.881][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:35.882][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:35.883][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:35.884][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:35.885][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:35.886][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:35.887][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:35.888][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:35.888][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:35.889][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:04:35.890][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:35.891][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:35.892][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:35.893][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:35.894][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:35.895][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:35.896][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:35.897][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:35.898][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:35.899][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:35.900][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:35.901][private$organizeFieldsByGroups] Groups [2]: "c("accession", "charge", "chebi.id", "formula", "inchi", "inchikey", "kegg.compound.id", "molecular.mass", "monoisotopic.mass", "n.stars", "name", "smiles"), list()"
biodb.TRACE[2025-08-30 16:04:35.902][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:35.903][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:35.904][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:35.904][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:35.905][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:35.906][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:35.907][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:35.908][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:35.909][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:35.910][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:35.911][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:35.912][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:35.913][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:35.914][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:35.915][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:35.916][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:35.917][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:35.918][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:35.919][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:35.920][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:35.921][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:35.922][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:35.923][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:35.924][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:35.925][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:35.926][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:35.927][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:35.927][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:35.928][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:35.929][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:35.930][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:35.931][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:35.932][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:35.933][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:35.934][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:35.935][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:35.936][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:35.937][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:35.938][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:35.939][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:35.940][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:35.941][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:35.942][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:35.943][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:35.944][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:35.945][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:35.945][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:35.946][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:35.947][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:35.948][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:35.949][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:35.950][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:35.951][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:35.952][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:35.953][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:35.954][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:35.955][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:35.956][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:35.957][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:35.958][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:35.959][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:35.960][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:35.961][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:35.962][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:35.963][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:35.964][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:35.965][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:35.965][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:35.966][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:35.972][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:35.973][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:35.974][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:35.975][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:35.976][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:35.977][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:35.978][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:35.979][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:35.980][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:35.981][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:35.981][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:35.982][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:35.983][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:35.984][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:35.985][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:35.986][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:35.987][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:35.988][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:35.989][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:35.990][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:35.991][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:35.992][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:35.993][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:35.994][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:35.995][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:35.995][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:35.996][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:35.997][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:35.998][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:35.999][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:36.000][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:36.001][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:36.002][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:36.003][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:36.004][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:36.005][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:36.006][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:36.007][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:36.008][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:36.009][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:04:36.010][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:36.011][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:36.011][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:36.012][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:04:36.013][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:36.014][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:36.015][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:36.016][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:04:36.017][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:36.018][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:36.019][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:36.020][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:36.021][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:36.022][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:36.023][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:36.024][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:36.025][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:36.026][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:36.027][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:36.027][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:36.028][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:36.029][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:36.030][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:36.031][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:36.032][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:36.033][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:36.034][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:36.035][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:36.036][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:36.037][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:36.038][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:36.039][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:36.040][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:36.041][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:36.042][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:36.048][private$entriesToListOfDataframes] Entry converted to data frame: [1, 12]: [accession, charge, chebi.id, formula, inchi, ...] [4648, 0, 4648, C30H50, InChI=1S/C30H50/c1-20(2)21-12-17-27(5)22(21)13-18-29(7)24(27)10-11-25-28(6)16-9-15-26(3,4)23(28)14-19-30(25,29)8/h21-25H,1,9-19H2,2-8H3/t21-,22+,23+,24-,25-,27+,28+,29-,30-/m1/s1, ...].
biodb.DEBUG[2025-08-30 16:04:36.049][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:36.050][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:36.051][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:36.055][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:36.056][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:36.057][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:36.058][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:36.059][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:36.060][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:36.061][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:36.061][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:36.062][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:36.063][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:36.064][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:36.065][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:36.066][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:36.067][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:36.068][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:36.069][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:36.070][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:36.071][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:36.072][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:36.073][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:36.074][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:36.075][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:36.075][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:36.076][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:36.077][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:36.078][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:36.079][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:36.080][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:36.081][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:36.082][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:36.083][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:36.084][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:36.085][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:36.086][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:36.087][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:36.088][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:36.088][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:36.089][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:36.090][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:36.091][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:36.092][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:36.093][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:36.094][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:36.095][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:36.096][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:36.097][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:36.098][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:36.099][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:36.100][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:36.101][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:36.102][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:36.103][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:36.103][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:36.104][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:36.105][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:36.106][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:36.107][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:36.108][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:36.109][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:36.110][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:36.111][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:36.112][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:36.113][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:36.114][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:36.115][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:36.116][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:36.117][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:36.118][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:36.119][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:36.120][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:36.121][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:36.121][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:36.122][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:36.123][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:36.124][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:36.125][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:36.126][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:04:36.127][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:36.128][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:36.129][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:36.130][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:04:36.131][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:36.132][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:36.133][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:36.134][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:36.135][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:36.136][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:36.137][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:36.138][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:36.139][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:36.139][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:36.140][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:36.141][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:36.142][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:36.143][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:36.144][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:36.145][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:36.146][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:36.147][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:36.148][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:36.149][private$selectFields] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2025-08-30 16:04:36.150][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:04:36.151][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:04:36.152][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:04:36.153][private$selectFields] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2025-08-30 16:04:36.153][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:36.155][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:36.155][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:36.156][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:36.157][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:36.158][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:36.159][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:36.160][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:36.161][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:36.162][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:36.163][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:36.164][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:36.165][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:36.166][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:36.167][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:36.168][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:36.168][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:36.169][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:36.170][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:36.171][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:36.172][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:36.173][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:36.174][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:36.175][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:36.176][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:36.177][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:36.178][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:36.179][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:36.180][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:36.181][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:36.182][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:36.182][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:36.183][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:36.184][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:36.185][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:36.186][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:36.187][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:04:36.188][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:36.189][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:36.190][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:36.191][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:36.192][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:36.193][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:36.194][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:36.195][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:36.196][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:36.197][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:36.197][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:36.198][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:36.199][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:36.200][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:36.201][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:36.202][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:36.203][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:36.204][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:36.205][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:36.206][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:36.207][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:36.208][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:36.209][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:36.210][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:36.211][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:36.212][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:36.212][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:36.213][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:36.214][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:36.215][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:36.216][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:36.217][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:36.218][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:36.219][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:36.220][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:36.221][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:36.222][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:36.223][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:36.224][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:36.225][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:36.226][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:36.226][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:36.227][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:36.228][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:36.229][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:36.230][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:36.231][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:36.232][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:04:36.233][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:36.234][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:36.235][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:36.236][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:36.237][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:36.238][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:36.239][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:36.240][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:36.241][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:36.241][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:36.242][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:36.243][private$selectFields] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2025-08-30 16:04:36.244][private$organizeFieldsByGroups] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2025-08-30 16:04:36.245][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:36.246][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:36.247][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:36.248][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:36.249][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:36.250][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:36.251][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:36.252][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:36.253][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:36.254][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:36.255][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:36.255][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:36.256][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:36.257][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:36.258][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:36.259][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:36.260][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:36.261][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:36.262][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:36.263][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:36.264][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:36.265][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:36.266][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:36.267][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:36.268][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:36.269][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:36.270][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:36.270][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:36.271][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:36.272][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:36.273][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:36.274][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:36.275][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:36.276][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:36.277][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:36.278][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:36.279][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:04:36.280][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:36.285][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:36.286][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:36.287][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:36.288][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:36.289][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:36.290][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:36.291][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:36.292][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:36.293][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:36.294][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:36.295][private$organizeFieldsByGroups] Groups [2]: "c("accession", "charge", "chebi.id", "formula", "inchi", "inchikey", "kegg.compound.id", "molecular.mass", "monoisotopic.mass", "n.stars", "name", "smiles"), list()"
biodb.TRACE[2025-08-30 16:04:36.296][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:36.297][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:36.297][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:36.298][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:36.299][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:36.300][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:36.301][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:36.302][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:36.303][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:36.304][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:36.305][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:36.306][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:36.307][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:36.308][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:36.309][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:36.310][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:36.311][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:36.312][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:36.313][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:36.313][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:36.314][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:36.315][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:36.316][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:36.317][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:36.318][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:36.319][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:36.320][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:36.321][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:36.322][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:36.323][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:36.324][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:36.325][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:36.326][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:36.327][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:36.328][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:36.328][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:36.330][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:36.331][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:36.331][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:36.332][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:36.333][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:36.334][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:36.335][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:36.336][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:36.337][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:36.338][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:36.339][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:36.340][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:36.341][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:36.342][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:36.343][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:36.344][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:36.345][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:36.346][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:36.346][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:36.347][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:36.348][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:36.349][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:36.350][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:36.351][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:36.352][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:36.353][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:36.354][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:36.355][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:36.356][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:36.357][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:36.358][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:36.359][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:36.360][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:36.361][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:36.361][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:36.362][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:36.363][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:36.364][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:36.365][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:36.366][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:36.367][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:36.368][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:36.369][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:36.370][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:36.371][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:36.372][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:36.373][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:36.374][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:36.375][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:36.376][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:36.377][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:36.377][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:36.378][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:36.379][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:36.380][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:36.381][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:36.382][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:36.383][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:36.384][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:36.385][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:36.386][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:36.387][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:36.388][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:36.389][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:36.390][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:36.391][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:36.392][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:36.393][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:36.393][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:36.394][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:36.395][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:36.396][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:36.397][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:04:36.398][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:36.399][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:36.400][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:36.401][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:04:36.402][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:36.403][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:36.404][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:36.405][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:04:36.406][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:36.407][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:36.408][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:36.409][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:36.410][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:36.411][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:36.411][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:36.412][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:36.413][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:36.414][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:36.415][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:36.416][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:36.417][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:36.418][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:36.419][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:36.420][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:36.421][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:36.422][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:36.423][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:36.424][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:36.425][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:36.426][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:36.427][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:36.428][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:36.429][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:36.429][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:36.430][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:36.437][private$entriesToListOfDataframes] Entry converted to data frame: [1, 12]: [accession, charge, chebi.id, formula, inchi, ...] [15440, 0, 15440, C30H50, InChI=1S/C30H50/c1-25(2)15-11-19-29(7)23-13-21-27(5)17-9-10-18-28(6)22-14-24-30(8)20-12-16-26(3)4/h15-18,23-24H,9-14,19-22H2,1-8H3/b27-17+,28-18+,29-23+,30-24+, ...].
biodb.DEBUG[2025-08-30 16:04:36.438][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:36.439][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:36.440][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:36.444][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:36.445][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:36.446][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:36.447][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:36.448][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:36.449][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:36.450][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:36.451][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:36.452][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:36.453][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:36.453][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:36.454][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:36.455][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:36.456][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:36.457][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:36.458][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:36.459][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:36.460][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:36.461][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:36.462][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:36.463][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:36.464][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:36.465][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:36.466][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:36.467][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:36.468][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:36.469][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:36.469][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:36.470][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:36.471][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:36.472][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:36.473][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:36.474][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:36.475][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:36.476][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:36.477][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:36.478][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:36.479][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:36.480][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:36.481][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:36.482][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:36.483][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:36.484][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:36.485][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:36.486][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:36.487][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:36.487][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:36.488][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:36.489][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:36.490][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:36.491][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:36.492][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:36.493][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:36.494][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:36.495][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:36.496][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:36.497][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:36.498][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:36.499][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:36.500][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:36.501][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:36.502][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:36.503][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:36.503][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:36.504][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:36.505][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:36.506][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:36.507][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:36.508][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:36.509][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:36.510][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:36.511][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:36.512][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:36.513][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:36.514][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:36.515][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:36.516][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:04:36.517][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:36.518][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:36.519][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:36.520][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:04:36.521][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:36.521][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:36.522][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:36.523][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:36.524][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:36.525][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:36.526][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:36.527][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:36.528][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:36.529][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:36.530][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:36.531][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:36.532][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:36.533][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:36.534][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:36.535][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:36.536][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:36.537][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:36.537][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:36.538][private$selectFields] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2025-08-30 16:04:36.539][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:04:36.540][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:04:36.541][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:04:36.542][private$selectFields] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2025-08-30 16:04:36.543][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:36.544][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:36.545][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:36.546][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:36.547][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:36.548][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:36.549][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:36.550][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:36.550][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:36.552][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:36.552][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:36.553][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:36.554][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:36.555][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:36.556][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:36.557][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:36.558][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:36.559][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:36.560][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:36.561][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:36.562][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:36.563][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:36.564][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:36.565][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:36.565][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:36.566][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:36.567][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:36.568][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:36.569][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:36.570][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:36.571][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:36.572][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:36.573][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:36.574][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:36.575][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:36.576][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:36.577][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:04:36.578][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:36.579][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:36.579][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:36.580][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:36.581][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:36.582][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:36.583][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:36.584][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:36.585][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:36.586][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:36.587][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:36.588][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:36.589][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:36.590][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:36.591][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:36.592][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:36.593][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:36.594][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:36.599][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:36.600][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:36.601][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:36.602][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:36.603][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:36.604][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:36.605][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:36.606][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:36.607][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:36.608][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:36.608][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:36.609][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:36.610][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:36.611][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:36.612][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:36.613][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:36.614][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:36.615][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:36.616][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:36.617][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:36.618][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:36.619][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:36.620][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:36.620][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:36.621][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:36.622][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:36.623][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:36.624][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:36.625][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:36.626][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:04:36.627][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:36.628][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:36.629][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:36.630][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:36.631][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:36.632][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:36.632][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:36.633][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:36.634][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:36.635][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:36.636][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:36.637][private$selectFields] Fields [11]: "accession, charge, chebi.id, formula, inchi, inchikey, molecular.mass, monoisotopic.mass, n.stars, name, ..."
biodb.TRACE[2025-08-30 16:04:36.638][private$organizeFieldsByGroups] Fields [11]: "accession, charge, chebi.id, formula, inchi, inchikey, molecular.mass, monoisotopic.mass, n.stars, name, ..."
biodb.TRACE[2025-08-30 16:04:36.639][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:36.640][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:36.641][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:36.642][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:36.643][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:36.644][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:36.644][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:36.645][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:36.646][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:36.647][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:36.648][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:36.649][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:36.650][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:36.651][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:36.652][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:36.653][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:36.654][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:36.655][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:36.656][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:36.656][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:36.657][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:36.658][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:36.659][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:36.660][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:36.661][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:36.662][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:36.663][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:36.664][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:36.665][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:36.666][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:36.667][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:36.667][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:36.668][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:04:36.669][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:36.670][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:36.671][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:36.672][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:36.673][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:36.674][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:36.675][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:36.676][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:36.677][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:36.678][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:36.678][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:36.679][private$organizeFieldsByGroups] Groups [2]: "c("accession", "charge", "chebi.id", "formula", "inchi", "inchikey", "molecular.mass", "monoisotopic.mass", "n.stars", "name", "smiles"), list()"
biodb.TRACE[2025-08-30 16:04:36.680][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:36.681][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:36.682][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:36.683][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:36.684][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:36.685][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:36.686][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:36.687][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:36.688][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:36.689][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:36.690][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:36.691][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:36.692][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:36.693][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:36.694][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:36.695][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:36.696][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:36.696][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:36.697][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:36.698][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:36.699][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:36.700][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:36.701][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:36.702][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:36.703][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:36.704][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:36.705][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:36.706][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:36.707][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:36.708][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:36.709][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:36.710][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:36.711][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:36.712][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:36.712][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:36.713][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:36.714][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:36.715][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:36.716][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:36.717][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:36.718][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:36.719][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:36.720][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:36.721][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:36.722][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:36.723][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:36.724][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:36.725][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:36.726][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:36.727][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:36.728][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:36.729][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:36.730][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:36.731][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:36.731][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:36.732][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:36.733][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:36.734][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:36.735][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:36.736][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:36.737][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:36.738][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:36.739][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:36.740][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:36.741][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:36.742][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:36.743][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:36.744][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:36.745][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:36.746][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:36.747][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:36.748][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:36.749][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:36.750][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:36.751][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:36.752][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:36.753][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:36.754][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:36.754][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:36.755][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:36.756][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:36.757][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:36.758][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:36.759][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:36.760][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:36.761][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:36.762][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:36.763][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:36.764][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:36.765][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:36.766][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:36.767][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:36.768][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:36.769][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:36.770][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:36.771][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:36.772][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:04:36.773][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:36.774][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:36.775][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:36.776][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:04:36.777][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:36.777][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:36.778][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:36.779][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:04:36.780][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:36.781][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:36.782][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:36.783][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:36.784][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:36.785][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:36.786][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:36.787][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:36.788][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:36.789][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:36.790][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:36.791][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:36.792][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:36.793][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:36.794][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:36.795][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:36.796][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:36.797][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:36.798][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:36.799][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:36.800][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:36.800][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:36.801][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:36.802][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:36.803][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:36.804][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:36.805][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:36.811][private$entriesToListOfDataframes] Entry converted to data frame: [1, 11]: [accession, charge, chebi.id, formula, inchi, ...] [62447, 0, 62447, C30H50, InChI=1S/C30H50/c1-21(2)11-9-12-22(3)23-15-19-29(7)24(23)13-14-26-28(6)18-10-17-27(4,5)25(28)16-20-30(26,29)8/h11,23-26H,3,9-10,12-20H2,1-2,4-8H3/t23-,24-,25+,26-,28+,29-,30-/m1/s1, ...].
biodb.DEBUG[2025-08-30 16:04:36.812][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-08-30 16:04:36.813][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2025-08-30 16:04:36.816][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:36.817][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:36.818][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:36.822][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:36.823][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:36.824][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:36.825][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:04:36.827][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=480.29*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-08-30 16:04:36.830][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-08-30 16:04:36.831][cch$loadFileContent] Trying to load 1 files from cache: [1]: "7269bbea581f1e243800f8ee4e0f4fdb".
biodb.TRACE[2025-08-30 16:04:36.832][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-08-30 16:04:36.834][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/7269bbea581f1e243800f8ee4e0f4fdb.content".
biodb.DEBUG[2025-08-30 16:04:36.836][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:36.837][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:36.838][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:36.842][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:36.843][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:36.844][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:36.845][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:36.846][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:36.847][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:36.848][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:36.849][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:36.850][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:36.851][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:36.852][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:36.853][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:36.854][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:36.855][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:36.856][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:36.857][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:36.858][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:36.858][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:36.859][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:36.864][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:36.864][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:36.865][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:36.866][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:36.867][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:36.868][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:36.869][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:36.870][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:36.871][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:36.872][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:36.873][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:36.874][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:36.875][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:36.876][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:36.877][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:36.878][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:36.879][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:36.880][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:36.881][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:36.885][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:36.886][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:36.887][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:36.888][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:36.889][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:36.890][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:36.891][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:36.892][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:36.893][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:36.894][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:36.895][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:36.896][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:36.896][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:36.898][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:36.898][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:36.899][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:36.901][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-08-30 16:04:36.902][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:36.903][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:36.904][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:36.908][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:36.909][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:36.910][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:36.916][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:36.917][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:36.918][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:36.919][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:36.920][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:36.921][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:36.922][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:36.923][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:36.924][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:36.925][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:36.926][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:36.927][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:36.928][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:36.929][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:36.930][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:36.931][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:36.932][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:36.933][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:36.934][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:36.934][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:36.935][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:36.936][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:36.937][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:36.938][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:36.939][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:36.940][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:36.941][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:36.942][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:36.943][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:36.944][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:36.945][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:36.946][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:36.947][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:36.948][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:36.949][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:36.950][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:36.951][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:36.952][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:36.953][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:36.953][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:36.954][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:36.955][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:36.956][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:36.957][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:36.958][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:36.959][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:36.960][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:36.961][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:36.962][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:36.963][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:36.964][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:36.965][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:36.966][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:36.967][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:36.968][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:36.969][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:36.969][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:36.970][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:36.971][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:36.972][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:36.973][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:36.974][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:36.975][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:36.976][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:36.977][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:36.978][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:36.979][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:36.980][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:36.981][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:36.982][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:36.983][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:36.984][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:36.985][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:36.985][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:04:36.987][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:36.987][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:36.988][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:36.989][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:04:36.990][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:36.991][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:36.992][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:36.993][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:36.994][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:36.995][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:36.996][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:36.997][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:36.998][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:36.999][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:37.000][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:37.001][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:37.002][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:37.003][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:37.003][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:37.004][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:37.005][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:37.006][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:37.007][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:37.008][private$selectFields] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2025-08-30 16:04:37.009][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:04:37.010][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:04:37.011][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:04:37.012][private$selectFields] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2025-08-30 16:04:37.013][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:37.014][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:37.015][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:37.016][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:37.016][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:37.017][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:37.018][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:37.019][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:37.020][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:37.021][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:37.022][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:37.023][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:37.024][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:37.025][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:37.026][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:37.027][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:37.028][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:37.029][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:37.030][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:37.030][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:37.031][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:37.032][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:37.033][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:37.034][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:37.035][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:37.036][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:37.037][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:37.038][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:37.039][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:37.040][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:37.041][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:37.042][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:37.043][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:37.044][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:37.044][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:37.045][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:37.046][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:04:37.047][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:37.048][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:37.049][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:37.050][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:37.051][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:37.052][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:37.053][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:37.054][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:37.055][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:37.056][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:37.057][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:37.057][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:37.058][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:37.059][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:37.060][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:37.061][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:37.062][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:37.063][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:37.064][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:37.065][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:37.066][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:37.067][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:37.068][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:37.069][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:37.070][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:37.071][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:37.072][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:37.073][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:37.074][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:37.075][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:37.075][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:37.076][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:37.077][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:37.078][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:37.079][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:37.080][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:37.081][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:37.082][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:37.083][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:37.084][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:37.085][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:37.086][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:37.087][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:37.088][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:37.089][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:37.090][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:37.091][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:37.091][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:04:37.092][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:37.093][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:37.094][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:37.095][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:37.096][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:37.097][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:37.098][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:37.099][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:37.100][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:37.101][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:37.102][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:37.103][private$selectFields] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2025-08-30 16:04:37.104][private$organizeFieldsByGroups] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2025-08-30 16:04:37.105][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:37.106][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:37.107][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:37.108][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:37.108][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:37.109][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:37.110][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:37.111][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:37.112][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:37.113][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:37.114][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:37.115][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:37.116][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:37.117][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:37.118][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:37.119][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:37.120][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:37.121][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:37.122][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:37.122][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:37.123][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:37.124][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:37.125][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:37.126][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:37.127][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:37.128][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:37.129][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:37.130][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:37.131][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:37.132][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:37.133][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:37.134][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:37.135][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:37.136][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:37.137][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:37.138][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:37.138][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:04:37.139][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:37.140][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:37.141][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:37.142][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:37.143][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:37.144][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:37.145][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:37.146][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:37.147][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:37.148][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:37.149][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:37.150][private$organizeFieldsByGroups] Groups [2]: "c("accession", "charge", "chebi.id", "formula", "inchi", "inchikey", "kegg.compound.id", "molecular.mass", "monoisotopic.mass", "n.stars", "name", "smiles"), list()"
biodb.TRACE[2025-08-30 16:04:37.151][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:37.152][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:37.153][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:37.154][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:37.154][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:37.156][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:37.156][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:37.157][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:37.158][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:37.159][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:37.160][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:37.161][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:37.162][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:37.163][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:37.164][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:37.165][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:37.166][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:37.167][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:37.168][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:37.169][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:37.170][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:37.171][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:37.172][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:37.173][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:37.174][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:37.175][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:37.176][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:37.176][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:37.177][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:37.178][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:37.179][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:37.180][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:37.181][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:37.182][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:37.183][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:37.184][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:37.185][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:37.186][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:37.187][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:37.188][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:37.189][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:37.190][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:37.191][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:37.192][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:37.193][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:37.194][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:37.195][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:37.196][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:37.197][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:37.198][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:37.199][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:37.199][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:37.200][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:37.201][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:37.202][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:37.203][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:37.204][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:37.205][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:37.206][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:37.207][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:37.208][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:37.209][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:37.210][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:37.211][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:37.212][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:37.213][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:37.214][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:37.215][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:37.216][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:37.217][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:37.217][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:37.218][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:37.219][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:37.220][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:37.221][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:37.222][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:37.223][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:37.224][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:37.225][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:37.226][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:37.231][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:37.233][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:37.233][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:37.234][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:37.235][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:37.237][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:37.237][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:37.238][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:37.239][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:37.240][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:37.241][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:37.242][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:37.243][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:37.244][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:37.245][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:37.246][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:37.247][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:37.248][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:37.249][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:37.250][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:37.251][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:37.252][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:37.252][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:37.253][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:37.254][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:37.255][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:37.256][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:37.257][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:37.258][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:04:37.259][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:37.260][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:37.261][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:37.262][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:04:37.263][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:37.264][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:37.265][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:37.266][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:04:37.267][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:37.268][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:37.268][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:37.269][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:37.270][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:37.271][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:37.272][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:37.273][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:37.274][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:37.275][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:37.276][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:37.277][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:37.278][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:37.279][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:37.280][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:37.281][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:37.282][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:37.283][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:37.284][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:37.285][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:37.285][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:37.286][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:37.287][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:37.288][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:37.289][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:37.290][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:37.291][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:37.297][private$entriesToListOfDataframes] Entry converted to data frame: [1, 12]: [accession, charge, chebi.id, formula, inchi, ...] [4781, 0, 4781, C29H40N2O4, InChI=1S/C29H40N2O4/c1-6-18-17-31-10-8-20-14-27(33-3)29(35-5)16-23(20)25(31)12-21(18)11-24-22-15-28(34-4)26(32-2)13-19(22)7-9-30-24/h13-16,18,21,24-25,30H,6-12,17H2,1-5H3/t18-,21-,24+,25-/m0/s1, ...].
biodb.DEBUG[2025-08-30 16:04:37.299][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:37.299][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:37.300][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:37.304][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:37.305][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:37.306][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:37.307][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:37.308][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:37.309][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:37.310][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:37.311][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:37.312][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:37.313][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:37.314][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:37.315][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:37.315][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:37.316][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:37.317][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:37.318][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:37.319][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:37.320][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:37.321][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:37.322][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:37.323][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:37.324][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:37.325][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:37.326][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:37.327][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:37.328][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:37.329][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:37.329][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:37.330][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:37.331][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:37.332][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:37.333][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:37.334][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:37.335][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:37.336][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:37.337][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:37.338][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:37.339][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:37.340][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:37.341][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:37.342][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:37.343][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:37.343][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:37.344][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:37.345][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:37.346][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:37.347][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:37.348][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:37.349][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:37.350][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:37.351][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:37.352][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:37.353][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:37.354][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:37.355][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:37.356][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:37.357][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:37.358][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:37.358][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:37.359][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:37.360][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:37.361][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:37.362][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:37.363][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:37.364][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:37.365][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:37.366][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:37.367][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:37.368][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:37.369][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:37.370][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:37.371][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:37.372][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:37.373][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:37.373][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:37.374][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:37.375][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:04:37.376][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:37.377][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:37.378][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:37.379][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:04:37.380][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:37.381][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:37.382][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:37.383][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:37.384][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:37.385][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:37.386][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:37.387][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:37.388][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:37.389][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:37.390][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:37.391][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:37.392][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:37.392][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:37.393][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:37.394][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:37.395][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:37.396][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:37.397][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:37.398][private$selectFields] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2025-08-30 16:04:37.399][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:04:37.400][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:04:37.401][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:04:37.402][private$selectFields] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2025-08-30 16:04:37.403][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:37.404][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:37.405][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:37.405][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:37.406][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:37.407][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:37.408][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:37.409][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:37.410][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:37.411][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:37.412][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:37.413][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:37.414][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:37.415][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:37.416][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:37.417][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:37.418][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:37.419][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:37.420][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:37.421][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:37.421][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:37.422][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:37.423][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:37.424][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:37.425][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:37.426][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:37.427][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:37.428][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:37.429][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:37.430][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:37.431][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:37.432][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:37.433][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:37.434][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:37.435][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:37.435][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:37.436][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:04:37.437][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:37.438][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:37.439][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:37.440][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:37.441][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:37.442][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:37.443][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:37.444][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:37.445][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:37.446][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:37.447][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:37.448][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:37.449][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:37.450][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:37.450][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:37.451][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:37.452][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:37.453][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:37.454][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:37.455][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:37.456][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:37.457][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:37.458][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:37.459][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:37.460][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:37.461][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:37.462][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:37.463][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:37.464][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:37.464][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:37.465][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:37.466][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:37.467][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:37.468][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:37.469][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:37.470][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:37.471][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:37.472][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:37.473][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:37.474][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:37.475][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:37.476][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:37.477][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:37.477][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:37.478][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:37.479][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:37.480][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:37.481][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:04:37.482][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:37.483][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:37.484][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:37.485][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:37.486][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:37.487][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:37.488][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:37.489][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:37.490][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:37.491][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:37.491][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:37.492][private$selectFields] Fields [11]: "accession, charge, chebi.id, formula, inchi, inchikey, molecular.mass, monoisotopic.mass, n.stars, name, ..."
biodb.TRACE[2025-08-30 16:04:37.493][private$organizeFieldsByGroups] Fields [11]: "accession, charge, chebi.id, formula, inchi, inchikey, molecular.mass, monoisotopic.mass, n.stars, name, ..."
biodb.TRACE[2025-08-30 16:04:37.494][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:37.495][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:37.496][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:37.497][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:37.498][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:37.499][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:37.501][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:37.502][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:37.504][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:37.505][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:37.506][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:37.507][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:37.508][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:37.509][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:37.510][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:37.511][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:37.512][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:37.513][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:37.514][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:37.515][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:37.516][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:37.517][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:37.518][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:37.518][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:37.519][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:37.520][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:37.521][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:37.522][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:37.523][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:37.524][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:37.525][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:37.526][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:37.527][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:04:37.528][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:37.529][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:37.530][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:37.531][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:37.532][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:37.533][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:37.534][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:37.535][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:37.536][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:37.536][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:37.537][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:37.538][private$organizeFieldsByGroups] Groups [2]: "c("accession", "charge", "chebi.id", "formula", "inchi", "inchikey", "molecular.mass", "monoisotopic.mass", "n.stars", "name", "smiles"), list()"
biodb.TRACE[2025-08-30 16:04:37.539][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:37.540][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:37.541][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:37.547][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:37.548][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:37.549][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:37.550][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:37.551][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:37.552][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:37.553][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:37.554][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:37.555][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:37.556][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:37.557][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:37.558][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:37.559][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:37.559][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:37.560][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:37.561][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:37.562][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:37.563][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:37.564][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:37.565][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:37.566][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:37.567][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:37.568][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:37.569][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:37.570][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:37.571][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:37.572][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:37.573][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:37.574][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:37.575][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:37.576][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:37.577][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:37.577][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:37.579][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:37.580][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:37.580][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:37.581][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:37.582][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:37.583][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:37.584][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:37.585][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:37.586][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:37.587][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:37.588][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:37.589][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:37.590][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:37.591][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:37.592][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:37.593][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:37.594][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:37.595][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:37.596][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:37.596][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:37.597][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:37.598][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:37.599][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:37.600][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:37.601][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:37.602][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:37.603][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:37.604][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:37.605][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:37.606][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:37.607][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:37.608][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:37.609][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:37.610][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:37.611][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:37.612][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:37.613][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:37.614][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:37.615][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:37.616][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:37.617][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:37.618][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:37.619][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:37.619][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:37.620][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:37.621][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:37.622][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:37.623][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:37.624][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:37.625][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:37.626][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:37.627][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:37.628][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:37.629][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:37.630][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:37.631][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:37.632][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:37.633][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:37.634][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:37.635][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:37.636][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:04:37.637][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:37.637][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:37.638][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:37.639][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:04:37.640][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:37.641][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:37.642][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:37.643][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:04:37.644][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:37.645][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:37.646][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:37.647][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:37.648][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:37.649][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:37.650][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:37.651][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:37.652][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:37.653][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:37.653][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:37.654][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:37.655][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:37.656][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:37.657][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:37.658][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:37.659][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:37.660][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:37.661][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:37.662][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:37.663][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:37.664][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:37.665][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:37.666][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:37.667][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:37.668][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:37.669][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:37.675][private$entriesToListOfDataframes] Entry converted to data frame: [1, 11]: [accession, charge, chebi.id, formula, inchi, ...] [91601, 0, 91601, C29H40N2O4, InChI=1S/C29H40N2O4/c1-6-18-17-31-10-8-20-14-27(33-3)29(35-5)16-23(20)25(31)12-21(18)11-24-22-15-28(34-4)26(32-2)13-19(22)7-9-30-24/h13-16,18,21,24-25,30H,6-12,17H2,1-5H3/t18-,21-,24?,25?/m0/s1, ...].
biodb.DEBUG[2025-08-30 16:04:37.676][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:37.676][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:37.677][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:37.681][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:37.682][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:37.683][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:37.684][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:37.685][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:37.686][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:37.687][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:37.688][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:37.689][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:37.690][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:37.691][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:37.692][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:37.693][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:37.694][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:37.695][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:37.696][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:37.697][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:37.698][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:37.699][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:37.699][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:37.700][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:37.701][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:37.702][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:37.703][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:37.704][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:37.705][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:37.706][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:37.707][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:37.708][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:37.709][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:37.710][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:37.711][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:37.712][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:37.713][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:37.714][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:37.715][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:37.716][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:37.717][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:37.718][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:37.718][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:37.719][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:37.720][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:37.721][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:37.722][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:37.723][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:37.724][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:37.725][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:37.726][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:37.727][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:37.728][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:37.729][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:37.730][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:37.731][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:37.732][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:37.733][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:37.734][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:37.735][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:37.736][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:37.736][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:37.737][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:37.738][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:37.739][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:37.740][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:37.741][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:37.742][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:37.743][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:37.744][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:37.745][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:37.746][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:37.747][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:37.748][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:37.749][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:37.750][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:37.751][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:37.752][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:37.753][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:37.754][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:04:37.755][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:37.755][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:37.756][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:37.757][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:04:37.758][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:37.759][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:37.760][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:37.761][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:37.762][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:37.763][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:37.764][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:37.765][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:37.766][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:37.767][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:37.768][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:37.769][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:37.770][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:37.771][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:37.772][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:37.772][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:37.773][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:37.774][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:37.775][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:37.776][private$selectFields] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2025-08-30 16:04:37.777][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:04:37.778][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:04:37.779][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:04:37.780][private$selectFields] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2025-08-30 16:04:37.781][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:37.782][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:37.783][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:37.784][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:37.785][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:37.786][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:37.786][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:37.787][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:37.788][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:37.789][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:37.790][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:37.791][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:37.792][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:37.793][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:37.794][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:37.795][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:37.796][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:37.797][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:37.798][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:37.799][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:37.799][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:37.800][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:37.801][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:37.802][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:37.803][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:37.804][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:37.805][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:37.806][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:37.807][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:37.808][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:37.809][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:37.810][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:37.811][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:37.812][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:37.813][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:37.814][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:37.814][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:04:37.815][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:37.816][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:37.817][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:37.818][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:37.819][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:37.820][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:37.821][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:37.822][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:37.823][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:37.824][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:37.825][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:37.826][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:37.827][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:37.828][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:37.829][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:37.829][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:37.830][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:37.831][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:37.832][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:37.833][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:37.834][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:37.835][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:37.836][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:37.837][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:37.838][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:37.839][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:37.840][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:37.841][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:37.842][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:37.843][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:37.843][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:37.844][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:37.845][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:37.846][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:37.847][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:37.848][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:37.849][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:37.850][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:37.851][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:37.852][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:37.853][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:37.854][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:37.855][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:37.856][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:37.861][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:37.862][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:37.863][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:37.864][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:04:37.865][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:37.866][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:37.867][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:37.868][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:37.869][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:37.870][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:37.870][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:37.871][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:37.872][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:37.873][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:37.874][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:37.875][private$selectFields] Fields [11]: "accession, charge, chebi.id, formula, inchi, inchikey, molecular.mass, monoisotopic.mass, n.stars, name, ..."
biodb.TRACE[2025-08-30 16:04:37.876][private$organizeFieldsByGroups] Fields [11]: "accession, charge, chebi.id, formula, inchi, inchikey, molecular.mass, monoisotopic.mass, n.stars, name, ..."
biodb.TRACE[2025-08-30 16:04:37.877][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:37.878][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:37.879][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:37.880][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:37.881][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:37.882][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:37.883][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:37.883][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:37.884][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:37.885][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:37.886][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:37.887][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:37.888][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:37.889][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:37.890][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:37.891][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:37.892][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:37.893][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:37.894][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:37.894][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:37.895][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:37.896][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:37.897][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:37.898][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:37.899][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:37.900][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:37.901][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:37.902][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:37.903][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:37.904][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:37.905][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:37.905][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:37.906][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:04:37.907][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:37.908][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:37.909][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:37.910][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:37.911][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:37.912][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:37.913][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:37.914][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:37.915][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:37.916][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:37.917][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:37.917][private$organizeFieldsByGroups] Groups [2]: "c("accession", "charge", "chebi.id", "formula", "inchi", "inchikey", "molecular.mass", "monoisotopic.mass", "n.stars", "name", "smiles"), list()"
biodb.TRACE[2025-08-30 16:04:37.918][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:37.919][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:37.920][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:37.921][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:37.922][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:37.923][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:37.924][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:37.925][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:37.926][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:37.927][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:37.928][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:37.929][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:37.930][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:37.931][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:37.932][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:37.933][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:37.934][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:37.934][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:37.935][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:37.936][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:37.937][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:37.938][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:37.939][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:37.940][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:37.941][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:37.942][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:37.943][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:37.944][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:37.945][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:37.946][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:37.947][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:37.948][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:37.949][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:37.950][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:37.950][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:37.951][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:37.952][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:37.953][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:37.954][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:37.955][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:37.956][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:37.957][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:37.958][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:37.959][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:37.960][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:37.961][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:37.962][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:37.963][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:37.964][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:37.965][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:37.966][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:37.967][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:37.967][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:37.968][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:37.969][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:37.970][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:37.971][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:37.972][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:37.973][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:37.974][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:37.975][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:37.976][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:37.977][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:37.978][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:37.979][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:37.980][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:37.981][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:37.982][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:37.983][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:37.984][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:37.984][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:37.985][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:37.986][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:37.987][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:37.988][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:37.989][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:37.990][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:37.991][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:37.992][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:37.993][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:37.994][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:37.995][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:37.996][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:37.997][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:37.998][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:37.999][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:38.000][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:38.001][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:38.002][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:38.003][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:38.003][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:38.004][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:38.005][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:38.006][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:38.007][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:38.008][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:38.009][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:04:38.010][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:38.011][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:38.012][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:38.013][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:04:38.014][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:38.015][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:38.016][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:38.017][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:04:38.018][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:38.019][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:38.020][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:38.021][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:38.022][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:38.023][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:38.024][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:38.025][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:38.026][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:38.027][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:38.027][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:38.028][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:38.029][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:38.030][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:38.031][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:38.032][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:38.033][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:38.034][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:38.035][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:38.036][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:38.037][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:38.038][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:38.039][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:38.040][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:38.041][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:38.042][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:38.043][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:38.049][private$entriesToListOfDataframes] Entry converted to data frame: [1, 11]: [accession, charge, chebi.id, formula, inchi, ...] [95147, 0, 95147, C29H40N2O4, InChI=1S/C29H40N2O4/c1-3-18-16(2)14-22-20(18)10-11-21-19-6-4-8-26(33)30-13-5-7-24-28(34)27(29(35)31-24)25(32)12-9-17(19)15-23(21)22/h4,8,10-11,16-24,27H,3,5-7,9,12-15H2,1-2H3,(H,30,33)(H,31,35)/t16-,17-,18-,19+,20+,21-,22+,23+,24+,27?/m1/s1, ...].
biodb.DEBUG[2025-08-30 16:04:38.050][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-08-30 16:04:38.051][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2025-08-30 16:04:38.054][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:38.055][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:38.056][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:38.060][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:38.061][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:38.062][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:38.063][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:04:38.065][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.17*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-08-30 16:04:38.068][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-08-30 16:04:38.069][cch$loadFileContent] Trying to load 1 files from cache: [1]: "acfa4b558978abf12409c2b56e678d03".
biodb.TRACE[2025-08-30 16:04:38.070][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-08-30 16:04:38.072][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/acfa4b558978abf12409c2b56e678d03.content".
biodb.DEBUG[2025-08-30 16:04:38.074][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:38.075][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:38.076][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:38.080][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:38.081][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:38.082][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:38.083][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:38.084][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:38.085][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:38.086][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:38.087][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:38.087][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:38.088][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:38.089][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:38.090][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:38.091][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:38.092][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:38.093][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:38.094][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:38.095][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:38.096][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:38.097][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:38.101][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:38.102][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:38.102][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:38.103][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:38.104][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:38.105][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:38.106][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:38.107][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:38.108][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:38.109][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:38.110][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:38.111][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:38.112][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:38.113][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:38.114][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:38.115][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:38.116][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:38.117][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:38.117][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:38.121][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:38.122][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:38.123][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:38.124][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:38.125][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:38.126][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:38.127][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:38.128][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:38.129][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:38.130][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:38.131][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:38.132][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:38.133][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:38.134][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:38.134][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:38.135][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:38.136][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-08-30 16:04:38.138][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:38.139][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:38.140][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:38.144][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:38.144][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:38.145][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:38.146][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:38.147][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:38.148][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:38.149][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:38.150][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:38.151][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:38.152][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:38.153][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:38.154][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:38.155][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:38.156][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:38.157][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:38.158][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:38.159][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:38.160][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:38.161][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:38.162][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:38.163][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:38.164][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:38.164][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:38.165][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:38.166][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:38.167][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:38.168][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:38.169][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:38.175][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:38.176][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:38.177][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:38.178][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:38.179][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:38.180][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:38.181][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:38.182][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:38.183][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:38.184][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:38.185][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:38.185][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:38.186][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:38.187][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:38.188][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:38.189][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:38.190][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:38.191][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:38.192][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:38.193][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:38.194][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:38.195][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:38.196][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:38.197][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:38.198][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:38.199][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:38.200][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:38.200][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:38.201][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:38.202][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:38.203][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:38.204][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:38.205][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:38.206][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:38.207][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:38.208][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:38.209][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:38.210][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:38.211][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:38.212][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:38.213][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:38.214][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:38.214][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:38.215][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:38.216][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:38.217][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:38.218][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:38.219][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:38.220][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:04:38.221][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:38.222][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:38.223][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:38.224][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:04:38.225][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:38.226][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:38.227][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:38.228][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:38.229][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:38.229][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:38.230][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:38.231][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:38.232][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:38.233][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:38.234][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:38.235][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:38.236][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:38.237][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:38.238][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:38.239][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:38.240][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:38.241][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:38.241][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:38.242][private$selectFields] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2025-08-30 16:04:38.243][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:04:38.244][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:04:38.245][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:04:38.246][private$selectFields] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2025-08-30 16:04:38.247][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:38.248][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:38.249][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:38.250][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:38.251][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:38.252][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:38.252][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:38.253][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:38.254][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:38.255][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:38.256][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:38.257][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:38.258][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:38.259][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:38.260][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:38.261][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:38.262][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:38.263][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:38.264][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:38.264][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:38.265][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:38.266][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:38.267][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:38.268][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:38.269][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:38.270][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:38.271][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:38.272][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:38.273][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:38.274][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:38.275][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:38.276][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:38.276][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:38.277][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:38.278][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:38.279][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:38.280][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:04:38.281][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:38.282][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:38.283][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:38.284][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:38.285][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:38.286][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:38.287][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:38.288][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:38.289][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:38.289][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:38.290][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:38.291][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:38.292][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:38.293][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:38.294][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:38.295][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:38.296][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:38.297][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:38.298][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:38.299][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:38.300][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:38.301][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:38.302][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:38.302][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:38.303][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:38.304][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:38.305][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:38.306][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:38.307][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:38.308][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:38.309][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:38.310][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:38.311][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:38.312][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:38.313][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:38.314][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:38.315][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:38.315][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:38.316][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:38.317][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:38.318][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:38.319][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:38.320][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:38.321][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:38.322][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:38.323][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:38.324][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:38.325][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:04:38.326][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:38.327][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:38.328][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:38.329][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:38.330][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:38.331][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:38.331][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:38.332][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:38.333][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:38.334][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:38.335][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:38.336][private$selectFields] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2025-08-30 16:04:38.337][private$organizeFieldsByGroups] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2025-08-30 16:04:38.338][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:38.339][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:38.340][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:38.341][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:38.342][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:38.343][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:38.344][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:38.345][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:38.346][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:38.347][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:38.347][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:38.348][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:38.349][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:38.350][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:38.351][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:38.352][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:38.353][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:38.354][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:38.355][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:38.356][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:38.357][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:38.358][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:38.359][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:38.360][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:38.360][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:38.362][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:38.362][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:38.363][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:38.364][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:38.365][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:38.366][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:38.367][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:38.368][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:38.369][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:38.370][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:38.371][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:38.372][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:04:38.373][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:38.374][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:38.375][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:38.375][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:38.376][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:38.377][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:38.378][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:38.379][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:38.380][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:38.381][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:38.382][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:38.383][private$organizeFieldsByGroups] Groups [2]: "c("accession", "charge", "chebi.id", "formula", "inchi", "inchikey", "kegg.compound.id", "molecular.mass", "monoisotopic.mass", "n.stars", "name", "smiles"), list()"
biodb.TRACE[2025-08-30 16:04:38.384][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:38.385][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:38.386][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:38.387][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:38.388][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:38.389][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:38.390][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:38.391][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:38.392][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:38.393][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:38.393][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:38.394][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:38.396][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:38.397][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:38.397][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:38.398][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:38.399][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:38.400][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:38.401][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:38.402][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:38.403][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:38.404][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:38.405][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:38.406][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:38.407][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:38.408][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:38.409][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:38.410][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:38.411][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:38.412][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:38.413][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:38.414][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:38.414][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:38.415][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:38.416][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:38.417][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:38.418][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:38.419][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:38.420][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:38.421][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:38.422][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:38.423][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:38.424][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:38.425][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:38.426][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:38.427][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:38.428][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:38.429][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:38.430][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:38.431][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:38.432][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:38.433][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:38.434][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:38.435][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:38.436][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:38.436][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:38.437][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:38.438][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:38.439][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:38.440][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:38.441][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:38.442][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:38.443][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:38.444][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:38.445][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:38.446][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:38.447][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:38.448][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:38.449][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:38.450][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:38.451][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:38.452][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:38.453][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:38.454][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:38.455][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:38.456][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:38.457][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:38.458][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:38.459][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:38.459][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:38.460][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:38.461][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:38.462][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:38.463][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:38.464][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:38.465][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:38.466][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:38.467][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:38.468][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:38.469][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:38.470][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:38.471][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:38.472][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:38.473][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:38.474][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:38.475][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:38.476][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:38.477][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:38.478][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:38.479][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:38.480][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:38.481][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:38.481][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:38.482][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:38.488][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:38.489][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:38.490][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:38.491][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:38.492][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:04:38.493][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:38.494][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:38.495][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:38.496][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:04:38.497][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:38.498][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:38.498][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:38.499][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:04:38.500][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:38.501][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:38.502][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:38.503][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:38.504][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:38.505][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:38.506][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:38.507][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:38.508][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:38.509][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:38.510][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:38.511][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:38.512][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:38.513][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:38.513][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:38.515][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:38.516][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:38.516][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:38.517][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:38.518][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:38.519][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:38.520][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:38.521][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:38.522][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:38.523][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:38.524][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:38.525][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:38.531][private$entriesToListOfDataframes] Entry converted to data frame: [1, 12]: [accession, charge, chebi.id, formula, inchi, ...] [636, 0, 636, C24H26O6, InChI=1S/C24H26O6/c1-12(2)6-7-14-19-17(11-16(26)22(14)28-5)29-18-10-15(25)13-8-9-24(3,4)30-23(13)20(18)21(19)27/h6,10-11,25-26H,7-9H2,1-5H3, ...].
biodb.DEBUG[2025-08-30 16:04:38.532][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:38.533][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:38.534][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:38.538][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:38.539][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:38.540][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:38.541][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:38.542][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:38.543][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:38.544][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:38.545][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:38.546][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:38.547][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:38.548][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:38.548][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:38.549][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:38.550][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:38.551][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:38.552][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:38.553][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:38.554][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:38.555][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:38.556][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:38.557][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:38.558][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:38.559][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:38.560][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:38.561][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:38.562][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:38.562][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:38.563][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:38.564][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:38.565][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:38.566][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:38.567][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:38.568][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:38.569][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:38.570][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:38.571][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:38.572][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:38.573][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:38.574][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:38.575][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:38.575][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:38.576][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:38.577][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:38.578][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:38.579][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:38.580][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:38.581][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:38.582][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:38.583][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:38.584][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:38.585][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:38.586][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:38.587][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:38.588][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:38.589][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:38.589][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:38.590][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:38.591][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:38.592][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:38.593][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:38.594][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:38.595][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:38.596][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:38.597][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:38.598][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:38.599][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:38.600][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:38.601][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:38.602][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:38.603][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:38.604][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:38.604][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:38.605][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:38.606][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:38.607][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:38.608][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:38.609][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:04:38.610][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:38.611][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:38.612][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:38.613][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:04:38.614][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:38.615][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:38.616][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:38.617][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:38.618][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:38.619][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:38.619][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:38.620][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:38.621][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:38.622][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:38.623][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:38.624][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:38.625][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:38.626][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:38.627][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:38.628][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:38.629][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:38.630][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:38.631][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:38.632][private$selectFields] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2025-08-30 16:04:38.633][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:04:38.634][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:04:38.634][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:04:38.635][private$selectFields] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2025-08-30 16:04:38.636][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:38.637][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:38.638][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:38.639][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:38.640][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:38.641][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:38.642][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:38.643][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:38.644][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:38.645][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:38.646][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:38.647][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:38.648][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:38.649][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:38.650][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:38.650][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:38.651][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:38.652][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:38.653][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:38.654][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:38.655][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:38.656][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:38.657][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:38.658][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:38.659][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:38.660][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:38.661][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:38.662][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:38.663][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:38.664][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:38.665][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:38.665][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:38.666][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:38.667][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:38.668][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:38.669][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:38.670][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:04:38.671][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:38.672][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:38.673][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:38.674][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:38.675][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:38.676][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:38.677][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:38.678][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:38.679][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:38.680][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:38.680][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:38.681][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:38.682][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:38.683][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:38.684][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:38.685][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:38.686][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:38.687][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:38.688][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:38.689][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:38.690][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:38.691][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:38.692][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:38.693][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:38.694][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:38.695][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:38.695][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:38.696][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:38.697][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:38.698][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:38.699][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:38.700][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:38.701][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:38.702][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:38.703][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:38.704][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:38.705][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:38.706][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:38.707][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:38.708][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:38.709][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:38.709][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:38.710][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:38.711][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:38.712][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:38.713][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:38.714][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:38.715][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:04:38.716][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:38.717][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:38.718][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:38.719][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:38.720][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:38.721][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:38.722][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:38.722][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:38.723][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:38.724][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:38.725][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:38.726][private$selectFields] Fields [11]: "accession, charge, chebi.id, formula, inchi, inchikey, molecular.mass, monoisotopic.mass, n.stars, name, ..."
biodb.TRACE[2025-08-30 16:04:38.727][private$organizeFieldsByGroups] Fields [11]: "accession, charge, chebi.id, formula, inchi, inchikey, molecular.mass, monoisotopic.mass, n.stars, name, ..."
biodb.TRACE[2025-08-30 16:04:38.728][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:38.729][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:38.730][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:38.731][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:38.732][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:38.733][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:38.734][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:38.735][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:38.736][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:38.737][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:38.737][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:38.738][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:38.739][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:38.740][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:38.741][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:38.742][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:38.743][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:38.744][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:38.745][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:38.746][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:38.747][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:38.748][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:38.749][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:38.750][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:38.750][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:38.751][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:38.752][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:38.753][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:38.754][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:38.755][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:38.756][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:38.757][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:38.758][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:04:38.759][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:38.760][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:38.761][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:38.762][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:38.763][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:38.764][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:38.764][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:38.765][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:38.766][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:38.767][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:38.768][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:38.769][private$organizeFieldsByGroups] Groups [2]: "c("accession", "charge", "chebi.id", "formula", "inchi", "inchikey", "molecular.mass", "monoisotopic.mass", "n.stars", "name", "smiles"), list()"
biodb.TRACE[2025-08-30 16:04:38.770][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:38.771][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:38.772][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:38.773][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:38.774][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:38.775][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:38.776][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:38.777][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:38.778][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:38.779][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:38.780][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:38.781][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:38.782][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:38.783][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:38.784][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:38.785][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:38.785][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:38.786][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:38.787][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:38.788][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:38.789][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:38.790][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:38.791][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:38.792][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:38.793][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:38.794][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:38.800][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:38.801][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:38.802][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:38.803][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:38.804][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:38.805][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:38.806][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:38.807][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:38.808][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:38.808][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:38.809][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:38.810][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:38.811][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:38.812][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:38.813][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:38.814][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:38.815][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:38.816][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:38.817][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:38.818][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:38.819][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:38.820][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:38.821][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:38.822][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:38.823][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:38.824][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:38.825][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:38.826][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:38.826][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:38.827][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:38.828][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:38.829][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:38.830][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:38.831][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:38.832][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:38.833][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:38.834][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:38.835][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:38.836][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:38.837][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:38.838][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:38.839][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:38.840][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:38.840][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:38.841][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:38.842][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:38.843][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:38.844][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:38.845][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:38.846][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:38.847][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:38.848][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:38.849][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:38.850][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:38.851][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:38.852][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:38.853][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:38.854][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:38.855][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:38.856][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:38.857][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:38.857][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:38.858][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:38.859][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:38.860][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:38.861][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:38.862][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:38.863][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:38.864][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:38.865][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:38.866][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:04:38.867][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:38.868][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:38.869][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:38.870][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:04:38.871][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:38.872][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:38.872][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:38.873][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:04:38.874][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:38.875][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:38.876][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:38.877][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:38.878][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:38.879][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:38.880][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:38.881][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:38.882][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:38.883][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:38.884][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:38.885][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:38.886][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:38.887][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:38.887][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:38.889][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:38.890][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:38.891][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:38.891][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:38.892][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:38.893][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:38.894][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:38.895][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:38.896][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:38.897][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:38.898][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:38.899][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:38.905][private$entriesToListOfDataframes] Entry converted to data frame: [1, 11]: [accession, charge, chebi.id, formula, inchi, ...] [64199, 0, 64199, C24H27ClN2O2, InChI=1S/C24H26N2O2.ClH/c27-24(28)20-9-10-23-22(16-20)21(17-25-23)8-4-5-13-26-14-11-19(12-15-26)18-6-2-1-3-7-18;/h1-3,6-7,9-11,16-17,25H,4-5,8,12-15H2,(H,27,28);1H, ...].
biodb.DEBUG[2025-08-30 16:04:38.906][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:38.907][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:38.908][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:38.912][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:38.913][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:38.913][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:38.914][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:38.915][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:38.916][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:38.917][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:38.918][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:38.919][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:38.920][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:38.921][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:38.922][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:38.923][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:38.924][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:38.925][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:38.926][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:38.927][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:38.928][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:38.929][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:38.929][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:38.930][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:38.931][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:38.932][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:38.933][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:38.934][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:38.935][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:38.936][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:38.937][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:38.938][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:38.939][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:38.940][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:38.941][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:38.942][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:38.943][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:38.944][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:38.945][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:38.945][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:38.946][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:38.947][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:38.948][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:38.949][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:38.950][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:38.951][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:38.952][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:38.953][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:38.954][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:38.955][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:38.956][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:38.957][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:38.958][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:38.959][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:38.960][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:38.961][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:38.962][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:38.963][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:38.964][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:38.964][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:38.965][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:38.966][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:38.967][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:38.968][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:38.969][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:38.970][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:38.971][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:38.972][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:38.973][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:38.974][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:38.975][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:38.976][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:38.977][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:38.978][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:38.979][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:38.980][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:38.981][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:38.982][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:38.983][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:38.983][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:04:38.985][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:38.985][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:38.986][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:38.987][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:04:38.988][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:38.989][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:38.990][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:38.991][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:38.992][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:38.993][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:38.994][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:38.995][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:38.996][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:38.997][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:38.998][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:38.999][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:39.000][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:39.001][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:39.001][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:39.002][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:39.003][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:39.004][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:39.005][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:39.006][private$selectFields] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2025-08-30 16:04:39.007][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:04:39.008][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:04:39.009][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:04:39.010][private$selectFields] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2025-08-30 16:04:39.011][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:39.012][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:39.013][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:39.014][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:39.015][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:39.016][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:39.016][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:39.017][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:39.018][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:39.019][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:39.020][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:39.021][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:39.022][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:39.023][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:39.024][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:39.025][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:39.026][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:39.027][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:39.028][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:39.029][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:39.029][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:39.030][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:39.031][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:39.032][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:39.033][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:39.034][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:39.035][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:39.036][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:39.037][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:39.038][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:39.039][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:39.040][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:39.041][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:39.042][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:39.043][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:39.044][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:39.045][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:04:39.046][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:39.046][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:39.047][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:39.048][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:39.049][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:39.050][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:39.051][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:39.052][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:39.053][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:39.054][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:39.055][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:39.056][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:39.057][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:39.058][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:39.059][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:39.060][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:39.061][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:39.061][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:39.062][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:39.063][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:39.064][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:39.065][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:39.066][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:39.067][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:39.068][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:39.069][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:39.070][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:39.071][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:39.072][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:39.073][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:39.074][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:39.075][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:39.076][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:39.076][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:39.077][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:39.078][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:39.079][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:39.080][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:39.081][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:39.082][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:39.083][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:39.084][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:39.085][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:39.086][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:39.087][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:39.088][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:39.089][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:39.090][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:04:39.091][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:39.091][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:39.092][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:39.093][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:39.094][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:39.095][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:39.096][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:39.097][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:39.098][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:39.099][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:39.100][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:39.101][private$selectFields] Fields [11]: "accession, charge, chebi.id, formula, inchi, inchikey, molecular.mass, monoisotopic.mass, n.stars, name, ..."
biodb.TRACE[2025-08-30 16:04:39.102][private$organizeFieldsByGroups] Fields [11]: "accession, charge, chebi.id, formula, inchi, inchikey, molecular.mass, monoisotopic.mass, n.stars, name, ..."
biodb.TRACE[2025-08-30 16:04:39.103][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:39.104][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:39.105][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:39.106][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:39.107][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:39.112][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:39.113][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:39.114][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:39.115][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:39.116][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:39.117][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:39.118][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:39.119][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:39.120][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:39.121][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:39.122][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:39.122][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:39.123][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:39.124][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:39.125][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:39.126][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:39.127][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:39.128][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:39.129][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:39.130][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:39.131][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:39.132][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:39.133][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:39.134][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:39.134][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:39.135][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:39.136][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:39.137][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:04:39.138][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:39.139][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:39.140][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:39.141][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:39.142][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:39.143][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:39.144][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:39.145][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:39.146][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:39.146][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:39.147][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:39.148][private$organizeFieldsByGroups] Groups [2]: "c("accession", "charge", "chebi.id", "formula", "inchi", "inchikey", "molecular.mass", "monoisotopic.mass", "n.stars", "name", "smiles"), list()"
biodb.TRACE[2025-08-30 16:04:39.149][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:39.150][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:39.151][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:39.152][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:39.153][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:39.154][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:39.155][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:39.156][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:39.157][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:39.158][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:39.159][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:39.159][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:39.161][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:39.162][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:39.162][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:39.163][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:39.164][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:39.165][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:39.166][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:39.167][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:39.168][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:39.169][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:39.170][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:39.171][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:39.172][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:39.173][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:39.174][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:39.175][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:39.176][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:39.177][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:39.177][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:39.178][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:39.179][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:39.180][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:39.181][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:39.182][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:39.183][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:39.184][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:39.185][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:39.186][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:39.187][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:39.188][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:39.189][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:39.190][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:39.191][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:39.192][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:39.193][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:39.194][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:39.195][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:39.196][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:39.196][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:39.197][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:39.198][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:39.199][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:39.200][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:39.201][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:39.202][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:39.203][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:39.204][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:39.205][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:39.206][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:39.207][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:39.208][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:39.209][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:39.210][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:39.211][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:39.211][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:39.212][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:39.213][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:39.214][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:39.215][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:39.216][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:39.217][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:39.218][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:39.219][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:39.220][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:39.221][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:39.222][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:39.223][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:39.224][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:39.225][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:39.226][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:39.227][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:39.228][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:39.229][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:39.230][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:39.230][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:39.231][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:39.232][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:39.233][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:39.234][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:39.235][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:39.236][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:39.237][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:39.238][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:39.239][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:39.240][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:04:39.241][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:39.242][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:39.243][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:39.244][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:04:39.245][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:39.246][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:39.247][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:39.247][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:04:39.248][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:39.249][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:39.250][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:39.251][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:39.252][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:39.253][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:39.254][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:39.255][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:39.256][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:39.257][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:39.258][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:39.259][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:39.260][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:39.261][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:39.262][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:39.263][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:39.264][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:39.265][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:39.266][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:39.267][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:39.268][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:39.269][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:39.270][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:39.271][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:39.272][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:39.273][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:39.273][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:39.280][private$entriesToListOfDataframes] Entry converted to data frame: [1, 11]: [accession, charge, chebi.id, formula, inchi, ...] [65648, 0, 65648, C24H26O6, InChI=1S/C24H26O6/c1-13(2)9-10-23-20(27)22(28-5)11-14-19(26)18-15(25)7-6-8-16(18)29-24(14,23)17(12-22)21(3,4)30-23/h6-9,11,17,25H,10,12H2,1-5H3/t17-,22-,23-,24+/m0/s1, ...].
biodb.DEBUG[2025-08-30 16:04:39.281][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-08-30 16:04:39.282][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2025-08-30 16:04:39.289][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:39.290][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:39.291][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:39.295][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:39.296][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:39.297][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:39.298][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:04:39.300][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.38*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-08-30 16:04:39.303][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-08-30 16:04:39.304][cch$loadFileContent] Trying to load 1 files from cache: [1]: "49f51d93ac229648aa454636918ce386".
biodb.TRACE[2025-08-30 16:04:39.305][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-08-30 16:04:39.307][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/49f51d93ac229648aa454636918ce386.content".
biodb.DEBUG[2025-08-30 16:04:39.310][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-08-30 16:04:39.312][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-08-30 16:04:39.314][cch$loadFileContent] Trying to load 1 files from cache: [1]: "121ea95906eb67bed88948c362686e4f".
biodb.TRACE[2025-08-30 16:04:39.315][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-08-30 16:04:39.316][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/121ea95906eb67bed88948c362686e4f.content".
biodb.DEBUG[2025-08-30 16:04:39.318][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:39.319][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:39.320][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:39.324][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:39.325][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:39.326][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:39.327][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:39.328][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:39.329][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:39.330][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:39.331][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:39.332][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:39.333][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:39.334][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:39.334][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:39.335][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:39.336][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:39.337][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:39.338][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:39.339][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:39.340][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:39.341][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:39.345][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:39.346][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:39.347][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:39.348][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:39.349][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:39.350][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:39.351][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:39.352][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:39.353][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:39.354][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:39.355][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:39.355][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:39.356][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:39.357][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:39.358][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:39.359][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:39.360][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:39.361][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:39.362][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:39.366][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:39.367][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:39.368][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:39.369][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:39.370][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:39.371][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:39.372][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:39.373][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:39.374][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:39.375][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:39.376][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:39.377][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:39.378][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:39.379][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:39.380][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:39.380][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:39.382][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-08-30 16:04:39.383][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:39.384][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:39.385][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:39.389][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:39.390][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:39.391][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:39.392][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:39.393][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:39.394][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:39.395][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:39.396][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:39.397][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:39.398][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:39.398][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:39.399][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:39.400][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:39.401][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:39.402][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:39.403][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:39.404][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:39.405][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:39.406][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:39.407][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:39.408][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:39.409][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:39.410][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:39.411][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:39.412][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:39.413][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:39.414][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:39.415][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:39.416][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:39.417][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:39.418][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:39.419][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:39.420][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:39.421][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:39.422][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:39.423][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:39.429][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:39.430][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:39.431][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:39.431][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:39.432][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:39.433][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:39.434][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:39.435][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:39.436][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:39.437][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:39.438][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:39.439][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:39.440][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:39.441][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:39.442][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:39.443][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:39.444][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:39.445][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:39.446][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:39.446][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:39.447][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:39.448][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:39.449][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:39.450][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:39.451][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:39.452][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:39.453][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:39.454][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:39.455][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:39.456][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:39.457][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:39.458][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:39.459][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:39.460][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:39.461][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:39.461][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:39.462][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:39.463][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:39.464][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:39.465][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:39.466][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:04:39.467][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:39.468][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:39.469][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:39.470][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:04:39.471][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:39.472][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:39.473][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:39.473][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:39.474][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:39.475][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:39.476][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:39.477][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:39.478][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:39.479][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:39.480][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:39.481][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:39.482][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:39.483][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:39.484][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:39.485][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:39.486][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:39.487][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:39.487][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:39.488][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.attr.
biodb.TRACE[2025-08-30 16:04:39.489][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.attr.
biodb.TRACE[2025-08-30 16:04:39.490][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:39.491][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:39.492][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.attr.
biodb.TRACE[2025-08-30 16:04:39.493][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.attr.
biodb.TRACE[2025-08-30 16:04:39.494][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:39.495][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:39.496][private$selectFields] Fields [13]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2025-08-30 16:04:39.497][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:04:39.498][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:04:39.499][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:04:39.499][private$selectFields] Fields [13]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2025-08-30 16:04:39.500][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:39.501][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:39.502][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:39.503][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:39.504][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:39.505][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:39.506][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:39.507][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:39.508][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:39.509][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:39.510][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:39.511][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:39.511][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:39.512][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:39.513][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:39.514][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:39.515][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:39.516][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:39.517][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:39.518][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:39.519][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:39.520][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:39.521][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:39.522][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:39.522][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:39.523][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:39.524][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:39.525][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:39.526][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:39.527][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:39.528][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:39.529][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:39.530][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:39.531][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:39.532][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:39.533][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:39.534][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:04:39.535][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:39.535][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:39.536][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:39.537][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:39.538][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:39.539][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:39.540][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:39.541][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:39.542][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:39.543][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:39.544][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:39.545][ef$get] Asked field names are: peak.attr.
biodb.TRACE[2025-08-30 16:04:39.546][ef$get] Realnames of fields are: peak.attr.
biodb.TRACE[2025-08-30 16:04:39.546][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:39.547][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:39.548][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:39.549][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:39.550][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:39.551][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:39.552][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:39.553][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:39.554][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:39.555][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:39.556][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:39.557][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:39.558][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:39.559][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:39.559][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:39.560][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:39.561][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:39.562][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:39.563][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:39.564][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:39.565][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:39.566][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:39.567][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:39.568][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:39.569][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:39.570][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:39.571][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:39.572][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:39.572][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:39.573][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:39.574][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:39.575][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:39.576][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:39.577][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:39.578][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:39.579][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:39.580][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:39.581][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:39.582][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:04:39.583][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:39.584][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:39.585][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:39.586][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:39.587][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:39.587][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:39.588][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:39.589][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:39.590][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:39.591][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:39.592][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:39.593][ef$get] Asked field names are: peak.attr.
biodb.TRACE[2025-08-30 16:04:39.594][ef$get] Realnames of fields are: peak.attr.
biodb.TRACE[2025-08-30 16:04:39.595][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:39.596][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:39.597][private$selectFields] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2025-08-30 16:04:39.598][private$organizeFieldsByGroups] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2025-08-30 16:04:39.599][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:39.600][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:39.601][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:39.601][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:39.602][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:39.603][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:39.604][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:39.605][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:39.606][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:39.607][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:39.608][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:39.609][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:39.610][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:39.611][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:39.612][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:39.613][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:39.614][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:39.615][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:39.615][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:39.616][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:39.617][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:39.618][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:39.619][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:39.620][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:39.621][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:39.622][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:39.623][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:39.624][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:39.625][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:39.626][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:39.627][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:39.628][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:39.628][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:39.629][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:39.630][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:39.631][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:39.632][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:04:39.633][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:39.634][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:39.635][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:39.636][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:39.637][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:39.638][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:39.639][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:39.640][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:39.641][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:39.641][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:39.642][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:39.643][private$organizeFieldsByGroups] Groups [2]: "c("accession", "charge", "chebi.id", "formula", "inchi", "inchikey", "kegg.compound.id", "molecular.mass", "monoisotopic.mass", "n.stars", "name", "smiles"), list()"
biodb.TRACE[2025-08-30 16:04:39.644][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:39.645][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:39.646][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:39.647][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:39.648][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:39.649][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:39.650][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:39.651][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:39.652][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:39.653][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:39.654][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:39.655][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:39.656][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:39.657][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:39.658][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:39.659][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:39.660][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:39.661][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:39.661][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:39.662][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:39.663][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:39.664][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:39.665][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:39.666][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:39.667][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:39.668][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:39.669][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:39.670][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:39.671][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:39.672][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:39.673][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:39.674][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:39.675][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:39.676][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:39.677][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:39.677][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:39.679][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:39.680][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:39.680][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:39.681][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:39.682][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:39.683][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:39.684][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:39.685][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:39.686][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:39.687][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:39.688][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:39.689][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:39.690][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:39.691][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:39.692][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:39.693][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:39.694][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:39.695][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:39.696][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:39.697][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:39.697][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:39.698][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:39.699][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:39.700][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:39.701][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:39.702][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:39.703][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:39.704][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:39.705][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:39.706][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:39.707][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:39.708][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:39.709][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:39.710][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:39.711][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:39.712][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:39.713][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:39.714][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:39.715][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:39.716][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:39.717][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:39.718][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:39.718][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:39.719][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:39.720][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:39.721][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:39.722][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:39.723][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:39.724][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:39.725][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:39.726][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:39.727][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:39.728][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:39.729][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:39.730][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:39.731][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:39.732][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:39.733][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:39.734][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:39.735][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:39.740][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:39.741][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:39.742][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:39.743][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:39.744][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:39.746][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:39.747][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:39.747][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:39.748][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:39.750][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:39.750][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:39.751][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:39.753][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:04:39.754][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:39.755][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:39.755][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:39.756][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:04:39.758][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:39.758][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:39.759][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:39.760][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:04:39.762][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:39.762][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:39.763][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:39.764][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:39.765][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:39.766][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:39.767][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:39.768][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:39.769][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:39.770][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:39.771][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:39.772][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:39.773][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:39.774][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:39.775][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:39.776][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:39.777][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:39.778][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:39.778][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:39.779][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:39.780][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:39.781][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:39.782][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:39.783][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:39.784][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:39.785][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:39.786][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:39.792][private$entriesToListOfDataframes] Entry converted to data frame: [1, 12]: [accession, charge, chebi.id, formula, inchi, ...] [4648, 0, 4648, C30H50, InChI=1S/C30H50/c1-20(2)21-12-17-27(5)22(21)13-18-29(7)24(27)10-11-25-28(6)16-9-15-26(3,4)23(28)14-19-30(25,29)8/h21-25H,1,9-19H2,2-8H3/t21-,22+,23+,24-,25-,27+,28+,29-,30-/m1/s1, ...].
biodb.DEBUG[2025-08-30 16:04:39.793][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:39.794][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:39.795][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:39.799][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:39.800][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:39.801][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:39.802][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:39.803][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:39.804][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:39.805][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:39.806][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:39.807][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:39.808][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:39.809][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:39.809][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:39.810][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:39.811][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:39.812][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:39.813][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:39.814][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:39.815][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:39.816][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:39.817][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:39.818][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:39.819][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:39.820][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:39.821][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:39.822][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:39.823][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:39.823][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:39.824][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:39.825][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:39.826][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:39.827][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:39.828][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:39.829][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:39.830][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:39.831][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:39.832][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:39.833][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:39.834][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:39.835][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:39.836][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:39.836][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:39.837][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:39.838][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:39.839][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:39.840][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:39.841][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:39.842][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:39.843][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:39.844][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:39.845][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:39.846][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:39.847][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:39.848][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:39.849][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:39.850][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:39.850][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:39.851][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:39.852][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:39.853][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:39.854][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:39.855][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:39.856][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:39.857][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:39.858][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:39.859][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:39.860][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:39.861][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:39.862][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:39.863][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:39.864][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:39.865][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:39.865][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:39.866][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:39.867][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:39.868][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:39.869][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:39.870][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:04:39.871][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:39.872][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:39.873][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:39.874][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:04:39.875][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:39.876][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:39.877][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:39.878][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:39.879][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:39.879][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:39.880][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:39.881][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:39.882][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:39.883][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:39.884][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:39.885][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:39.886][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:39.887][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:39.888][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:39.889][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:39.890][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:39.891][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:39.892][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:39.893][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.attr.
biodb.TRACE[2025-08-30 16:04:39.894][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.attr.
biodb.TRACE[2025-08-30 16:04:39.895][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:39.896][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:39.896][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.attr.
biodb.TRACE[2025-08-30 16:04:39.897][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.attr.
biodb.TRACE[2025-08-30 16:04:39.898][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:39.899][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:39.900][private$selectFields] Fields [13]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2025-08-30 16:04:39.901][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:04:39.902][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:04:39.903][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:04:39.904][private$selectFields] Fields [13]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2025-08-30 16:04:39.905][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:39.906][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:39.907][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:39.908][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:39.909][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:39.910][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:39.911][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:39.911][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:39.912][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:39.913][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:39.914][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:39.915][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:39.916][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:39.917][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:39.918][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:39.919][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:39.920][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:39.921][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:39.922][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:39.923][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:39.924][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:39.925][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:39.925][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:39.926][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:39.927][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:39.928][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:39.929][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:39.930][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:39.931][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:39.932][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:39.933][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:39.934][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:39.935][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:39.936][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:39.937][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:39.938][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:39.938][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:04:39.939][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:39.940][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:39.941][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:39.942][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:39.943][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:39.944][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:39.945][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:39.946][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:39.947][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:39.948][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:39.949][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:39.950][ef$get] Asked field names are: peak.attr.
biodb.TRACE[2025-08-30 16:04:39.951][ef$get] Realnames of fields are: peak.attr.
biodb.TRACE[2025-08-30 16:04:39.952][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:39.952][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:39.953][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:39.954][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:39.955][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:39.956][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:39.957][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:39.958][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:39.959][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:39.960][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:39.961][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:39.962][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:39.963][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:39.964][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:39.965][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:39.966][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:39.966][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:39.967][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:39.968][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:39.969][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:39.970][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:39.971][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:39.972][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:39.973][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:39.974][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:39.975][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:39.976][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:39.977][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:39.978][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:39.978][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:39.979][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:39.980][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:39.981][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:39.982][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:39.983][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:39.984][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:39.985][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:39.986][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:39.987][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:04:39.988][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:39.989][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:39.990][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:39.991][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:39.992][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:39.992][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:39.993][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:39.994][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:39.995][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:39.996][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:39.997][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:39.998][ef$get] Asked field names are: peak.attr.
biodb.TRACE[2025-08-30 16:04:39.999][ef$get] Realnames of fields are: peak.attr.
biodb.TRACE[2025-08-30 16:04:40.000][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.001][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:40.002][private$selectFields] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2025-08-30 16:04:40.003][private$organizeFieldsByGroups] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2025-08-30 16:04:40.004][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:40.005][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:40.006][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.006][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:40.007][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:40.008][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:40.009][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.010][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:40.011][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:40.012][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:40.013][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.014][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:40.015][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:40.016][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:40.017][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.018][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:40.019][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:40.020][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:40.020][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.021][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:40.022][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:40.023][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:40.024][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.025][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:40.026][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:40.027][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:40.028][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.029][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:40.030][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:40.031][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:40.032][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.033][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:40.033][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:40.034][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:40.035][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.036][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:40.037][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:04:40.038][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:40.039][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.040][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:40.041][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:40.042][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:40.043][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.044][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:40.045][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:40.046][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:40.051][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.052][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:40.053][private$organizeFieldsByGroups] Groups [2]: "c("accession", "charge", "chebi.id", "formula", "inchi", "inchikey", "kegg.compound.id", "molecular.mass", "monoisotopic.mass", "n.stars", "name", "smiles"), list()"
biodb.TRACE[2025-08-30 16:04:40.054][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:40.055][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:40.056][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.057][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:40.058][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:40.059][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:40.060][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.061][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:40.062][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:40.063][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:40.064][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.064][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:40.066][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:40.067][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:40.067][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.068][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:40.069][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:40.070][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:40.071][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.072][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:40.073][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:40.074][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:40.075][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.076][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:40.077][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:40.078][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:40.079][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.080][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:40.081][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:40.082][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:40.082][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.083][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:40.084][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:40.085][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:40.086][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.087][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:40.088][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:40.089][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:40.090][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.091][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:40.092][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:40.093][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:40.094][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.095][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:40.095][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:40.096][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:40.097][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.098][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:40.099][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:40.100][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:40.101][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.102][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:40.103][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:40.104][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:40.105][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.106][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:40.107][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:40.108][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:40.109][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.109][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:40.110][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:40.111][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:40.112][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.113][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:40.114][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:40.115][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:40.116][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.117][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:40.118][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:40.119][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:40.120][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.121][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:40.122][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:40.123][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:40.124][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.125][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:40.125][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:40.126][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:40.127][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.128][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:40.129][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:40.130][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:40.131][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.132][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:40.133][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:40.134][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:40.135][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.136][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:40.137][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:40.138][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:40.139][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.139][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:40.140][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:40.141][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:40.142][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.143][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:40.144][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:40.145][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:40.146][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.147][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:40.148][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:40.149][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:40.150][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.151][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:40.152][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:40.153][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:40.154][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.155][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:40.156][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:04:40.157][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:40.158][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.158][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:40.159][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:04:40.160][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:40.161][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.162][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:40.163][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:04:40.164][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:40.165][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.166][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:40.167][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:40.168][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:40.169][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.170][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:40.171][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:40.172][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:40.173][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.173][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:40.174][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:40.175][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:40.176][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.177][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:40.178][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:40.179][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:40.180][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.181][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:40.182][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:40.183][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:40.184][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.185][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:40.186][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:40.187][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:40.188][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.189][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:40.195][private$entriesToListOfDataframes] Entry converted to data frame: [1, 12]: [accession, charge, chebi.id, formula, inchi, ...] [15440, 0, 15440, C30H50, InChI=1S/C30H50/c1-25(2)15-11-19-29(7)23-13-21-27(5)17-9-10-18-28(6)22-14-24-30(8)20-12-16-26(3)4/h15-18,23-24H,9-14,19-22H2,1-8H3/b27-17+,28-18+,29-23+,30-24+, ...].
biodb.DEBUG[2025-08-30 16:04:40.196][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:40.197][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:40.198][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:40.202][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:40.203][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:40.204][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:40.205][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:40.206][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:40.207][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:40.208][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.209][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:40.210][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:40.211][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:40.211][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.212][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:40.213][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:40.214][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:40.215][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.216][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:40.217][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:40.218][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:40.219][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.220][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:40.221][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:40.222][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:40.223][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.224][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:40.225][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:40.226][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:40.227][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.228][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:40.228][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:40.229][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:40.230][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.231][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:40.232][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:40.233][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:40.234][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.235][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:40.236][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:40.237][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:40.238][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.239][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:40.240][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:40.241][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:40.242][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.243][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:40.244][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:40.245][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:40.245][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.246][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:40.247][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:40.248][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:40.249][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.250][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:40.251][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:40.252][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:40.253][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.254][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:40.255][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:40.256][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:40.257][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.258][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:40.259][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:40.260][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:40.260][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.261][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:40.262][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:40.263][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:40.264][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.265][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:40.266][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:40.267][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:40.268][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.269][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:40.270][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:40.271][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:40.272][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.273][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:40.274][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:04:40.275][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:40.276][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.276][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:40.277][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:04:40.278][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:40.279][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.280][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:40.281][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:40.282][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:40.283][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.284][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:40.285][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:40.286][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:40.287][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.288][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:40.289][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:40.290][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:40.291][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.292][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:40.292][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:40.293][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:40.294][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.295][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:40.296][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.attr.
biodb.TRACE[2025-08-30 16:04:40.297][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.attr.
biodb.TRACE[2025-08-30 16:04:40.298][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.299][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:40.300][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.attr.
biodb.TRACE[2025-08-30 16:04:40.301][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.attr.
biodb.TRACE[2025-08-30 16:04:40.302][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.303][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:40.304][private$selectFields] Fields [13]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2025-08-30 16:04:40.305][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:04:40.306][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:04:40.307][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:04:40.307][private$selectFields] Fields [13]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2025-08-30 16:04:40.308][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:40.309][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:40.310][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.311][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:40.312][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:40.313][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:40.314][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.315][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:40.316][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:40.317][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:40.318][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.319][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:40.320][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:40.321][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:40.322][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.322][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:40.323][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:40.324][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:40.325][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.326][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:40.327][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:40.328][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:40.329][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.330][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:40.331][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:40.332][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:40.333][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.334][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:40.335][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:40.336][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:40.337][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.337][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:40.338][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:40.339][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:40.340][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.341][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:40.342][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:04:40.343][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:40.344][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.345][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:40.346][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:40.347][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:40.348][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.349][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:40.350][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:40.351][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:40.351][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.352][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:40.353][ef$get] Asked field names are: peak.attr.
biodb.TRACE[2025-08-30 16:04:40.354][ef$get] Realnames of fields are: peak.attr.
biodb.TRACE[2025-08-30 16:04:40.355][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.356][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:40.362][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:40.363][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:40.364][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.365][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:40.366][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:40.367][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:40.368][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.369][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:40.370][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:40.371][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:40.371][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.372][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:40.373][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:40.374][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:40.375][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.376][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:40.377][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:40.378][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:40.379][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.380][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:40.381][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:40.382][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:40.383][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.383][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:40.384][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:40.385][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:40.386][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.387][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:40.388][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:40.389][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:40.390][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.391][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:40.392][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:40.393][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:40.394][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.395][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:40.395][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:04:40.396][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:40.397][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.398][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:40.399][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:40.400][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:40.401][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.402][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:40.403][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:40.404][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:40.405][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.406][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:40.407][ef$get] Asked field names are: peak.attr.
biodb.TRACE[2025-08-30 16:04:40.408][ef$get] Realnames of fields are: peak.attr.
biodb.TRACE[2025-08-30 16:04:40.408][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.409][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:40.410][private$selectFields] Fields [11]: "accession, charge, chebi.id, formula, inchi, inchikey, molecular.mass, monoisotopic.mass, n.stars, name, ..."
biodb.TRACE[2025-08-30 16:04:40.411][private$organizeFieldsByGroups] Fields [11]: "accession, charge, chebi.id, formula, inchi, inchikey, molecular.mass, monoisotopic.mass, n.stars, name, ..."
biodb.TRACE[2025-08-30 16:04:40.412][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:40.413][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:40.414][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.415][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:40.416][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:40.417][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:40.418][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.419][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:40.420][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:40.421][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:40.421][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.422][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:40.423][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:40.424][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:40.425][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.426][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:40.427][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:40.428][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:40.429][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.430][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:40.431][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:40.432][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:40.432][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.433][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:40.434][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:40.435][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:40.436][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.437][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:40.438][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:40.439][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:40.440][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.441][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:40.442][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:04:40.443][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:40.444][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.444][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:40.445][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:40.446][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:40.447][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.448][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:40.449][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:40.450][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:40.451][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.452][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:40.453][private$organizeFieldsByGroups] Groups [2]: "c("accession", "charge", "chebi.id", "formula", "inchi", "inchikey", "molecular.mass", "monoisotopic.mass", "n.stars", "name", "smiles"), list()"
biodb.TRACE[2025-08-30 16:04:40.454][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:40.455][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:40.456][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.457][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:40.458][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:40.459][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:40.460][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.460][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:40.461][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:40.462][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:40.463][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.464][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:40.465][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:40.466][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:40.467][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.468][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:40.469][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:40.470][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:40.471][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.472][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:40.473][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:40.474][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:40.475][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.476][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:40.477][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:40.478][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:40.479][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.479][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:40.480][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:40.481][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:40.482][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.483][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:40.484][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:40.485][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:40.486][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.487][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:40.488][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:40.489][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:40.490][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.491][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:40.492][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:40.493][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:40.494][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.495][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:40.496][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:40.497][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:40.497][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.498][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:40.499][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:40.500][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:40.501][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.502][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:40.503][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:40.504][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:40.505][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.506][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:40.507][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:40.508][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:40.509][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.510][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:40.511][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:40.512][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:40.513][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.514][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:40.515][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:40.516][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:40.517][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.518][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:40.519][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:40.520][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:40.521][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.521][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:40.523][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:40.524][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:40.524][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.525][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:40.526][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:40.527][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:40.528][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.529][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:40.530][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:40.531][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:40.532][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.533][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:40.534][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:40.535][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:40.536][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.537][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:40.538][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:40.539][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:40.540][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.541][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:40.542][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:40.543][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:40.544][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.544][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:40.546][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:04:40.547][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:40.547][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.548][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:40.549][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:04:40.550][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:40.551][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.552][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:40.553][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:04:40.554][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:40.555][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.556][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:40.557][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:40.558][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:40.559][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.560][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:40.561][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:40.562][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:40.563][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.564][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:40.565][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:40.566][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:40.566][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.567][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:40.569][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:40.570][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:40.570][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.571][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:40.572][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:40.573][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:40.574][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.575][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:40.576][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:40.577][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:40.578][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.579][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:40.585][private$entriesToListOfDataframes] Entry converted to data frame: [1, 11]: [accession, charge, chebi.id, formula, inchi, ...] [62447, 0, 62447, C30H50, InChI=1S/C30H50/c1-21(2)11-9-12-22(3)23-15-19-29(7)24(23)13-14-26-28(6)18-10-17-27(4,5)25(28)16-20-30(26,29)8/h11,23-26H,3,9-10,12-20H2,1-2,4-8H3/t23-,24-,25+,26-,28+,29-,30-/m1/s1, ...].
biodb.DEBUG[2025-08-30 16:04:40.586][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-08-30 16:04:40.587][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2025-08-30 16:04:40.590][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:40.591][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:40.591][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:40.596][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:40.596][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:40.597][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:40.598][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:04:40.601][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=480.29*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-08-30 16:04:40.604][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-08-30 16:04:40.605][cch$loadFileContent] Trying to load 1 files from cache: [1]: "7269bbea581f1e243800f8ee4e0f4fdb".
biodb.TRACE[2025-08-30 16:04:40.606][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-08-30 16:04:40.607][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/7269bbea581f1e243800f8ee4e0f4fdb.content".
biodb.DEBUG[2025-08-30 16:04:40.610][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:40.610][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:40.611][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:40.615][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:40.616][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:40.617][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:40.618][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:40.619][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:40.620][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:40.621][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.622][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:40.623][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:40.624][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:40.625][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.626][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:40.627][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:40.628][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:40.628][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.629][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:40.630][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:40.631][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:40.632][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:40.636][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:40.637][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:40.638][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:40.639][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:40.640][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:40.641][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:40.642][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.642][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:40.643][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:40.644][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:40.645][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.646][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:40.647][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:40.648][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:40.649][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.650][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:40.651][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:40.652][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:40.653][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:40.657][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:40.657][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:40.658][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:40.659][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:40.660][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:40.661][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:40.662][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.663][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:40.664][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:40.665][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:40.666][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.667][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:40.668][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:40.674][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:40.675][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.676][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:40.677][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-08-30 16:04:40.678][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:40.679][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:40.680][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:40.684][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:40.685][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:40.685][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:40.686][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:40.687][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:40.688][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:40.689][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.690][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:40.691][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:40.692][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:40.693][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.694][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:40.695][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:40.696][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:40.697][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.698][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:40.699][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:40.700][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:40.700][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.701][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:40.702][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:40.703][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:40.704][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.705][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:40.706][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:40.707][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:40.708][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.709][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:40.710][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:40.711][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:40.712][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.712][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:40.713][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:40.714][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:40.715][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.716][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:40.717][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:40.718][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:40.719][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.720][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:40.721][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:40.722][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:40.723][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.724][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:40.725][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:40.726][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:40.726][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.727][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:40.728][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:40.729][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:40.730][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.731][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:40.732][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:40.733][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:40.734][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.735][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:40.736][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:40.737][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:40.738][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.738][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:40.739][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:40.740][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:40.741][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.742][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:40.743][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:40.744][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:40.745][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.746][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:40.747][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:40.748][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:40.749][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.750][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:40.751][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:40.752][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:40.752][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.753][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:40.754][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:04:40.755][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:40.756][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.757][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:40.758][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:04:40.759][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:40.760][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.761][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:40.762][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:40.763][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:40.764][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.765][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:40.765][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:40.766][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:40.767][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.768][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:40.769][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:40.770][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:40.771][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.772][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:40.773][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:40.774][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:40.775][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.776][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:40.777][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.attr.
biodb.TRACE[2025-08-30 16:04:40.778][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.attr.
biodb.TRACE[2025-08-30 16:04:40.779][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.779][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:40.780][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.attr.
biodb.TRACE[2025-08-30 16:04:40.781][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.attr.
biodb.TRACE[2025-08-30 16:04:40.782][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.783][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:40.784][private$selectFields] Fields [13]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2025-08-30 16:04:40.785][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:04:40.786][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:04:40.787][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:04:40.788][private$selectFields] Fields [13]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2025-08-30 16:04:40.789][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:40.790][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:40.791][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.791][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:40.792][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:40.793][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:40.794][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.795][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:40.796][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:40.797][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:40.798][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.799][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:40.800][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:40.801][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:40.802][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.803][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:40.803][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:40.804][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:40.805][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.806][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:40.807][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:40.808][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:40.809][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.810][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:40.811][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:40.812][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:40.813][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.814][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:40.815][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:40.816][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:40.816][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.817][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:40.818][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:40.819][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:40.820][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.821][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:40.822][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:04:40.823][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:40.824][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.825][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:40.826][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:40.827][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:40.828][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.829][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:40.830][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:40.831][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:40.832][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.832][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:40.833][ef$get] Asked field names are: peak.attr.
biodb.TRACE[2025-08-30 16:04:40.834][ef$get] Realnames of fields are: peak.attr.
biodb.TRACE[2025-08-30 16:04:40.835][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.836][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:40.837][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:40.838][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:40.839][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.840][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:40.841][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:40.842][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:40.843][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.844][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:40.845][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:40.846][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:40.846][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.847][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:40.848][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:40.849][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:40.850][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.851][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:40.852][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:40.853][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:40.854][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.855][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:40.856][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:40.857][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:40.858][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.859][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:40.860][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:40.861][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:40.861][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.862][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:40.863][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:40.864][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:40.865][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.866][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:40.867][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:40.868][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:40.869][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.870][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:40.871][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:04:40.872][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:40.873][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.874][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:40.874][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:40.875][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:40.876][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.877][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:40.878][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:40.879][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:40.880][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.881][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:40.882][ef$get] Asked field names are: peak.attr.
biodb.TRACE[2025-08-30 16:04:40.883][ef$get] Realnames of fields are: peak.attr.
biodb.TRACE[2025-08-30 16:04:40.884][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.885][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:40.886][private$selectFields] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2025-08-30 16:04:40.887][private$organizeFieldsByGroups] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2025-08-30 16:04:40.888][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:40.889][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:40.889][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.890][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:40.891][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:40.892][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:40.893][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.894][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:40.895][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:40.896][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:40.897][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.898][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:40.899][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:40.900][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:40.901][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.901][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:40.902][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:40.903][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:40.904][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.905][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:40.906][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:40.907][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:40.908][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.909][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:40.910][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:40.911][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:40.912][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.913][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:40.914][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:40.915][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:40.915][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.916][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:40.917][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:40.918][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:40.919][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.920][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:40.921][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:04:40.922][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:40.923][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.924][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:40.925][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:40.926][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:40.927][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.928][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:40.928][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:40.929][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:40.930][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.931][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:40.932][private$organizeFieldsByGroups] Groups [2]: "c("accession", "charge", "chebi.id", "formula", "inchi", "inchikey", "kegg.compound.id", "molecular.mass", "monoisotopic.mass", "n.stars", "name", "smiles"), list()"
biodb.TRACE[2025-08-30 16:04:40.933][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:40.934][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:40.935][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.936][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:40.937][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:40.938][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:40.939][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.940][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:40.941][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:40.942][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:40.943][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.944][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:40.945][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:40.946][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:40.947][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.947][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:40.948][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:40.949][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:40.950][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.951][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:40.952][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:40.953][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:40.954][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.955][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:40.956][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:40.957][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:40.958][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.959][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:40.960][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:40.961][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:40.962][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.963][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:40.964][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:40.965][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:40.966][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.966][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:40.967][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:40.968][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:40.969][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.970][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:40.971][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:40.972][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:40.973][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.974][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:40.975][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:40.976][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:40.977][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.978][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:40.979][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:40.985][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:40.986][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.987][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:40.988][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:40.989][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:40.990][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.991][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:40.992][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:40.993][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:40.994][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.995][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:40.996][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:40.997][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:40.998][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.999][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:41.000][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:41.001][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:41.002][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:41.003][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:41.004][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:41.005][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:41.006][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:41.006][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:41.007][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:41.008][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:41.009][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:41.010][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:41.011][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:41.012][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:41.013][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:41.014][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:41.015][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:41.016][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:41.017][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:41.018][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:41.019][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:41.020][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:41.021][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:41.022][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:41.022][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:41.023][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:41.024][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:41.025][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:41.026][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:41.027][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:41.028][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:41.029][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:41.030][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:41.031][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:41.032][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:41.033][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:41.034][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:41.035][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:41.036][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:41.037][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:41.037][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:41.038][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:41.039][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:41.040][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:41.041][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:04:41.042][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:41.043][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:41.044][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:41.045][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:04:41.046][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:41.047][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:41.048][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:41.049][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:04:41.050][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:41.051][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:41.052][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:41.053][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:41.054][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:41.054][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:41.055][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:41.056][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:41.057][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:41.058][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:41.059][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:41.060][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:41.061][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:41.062][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:41.063][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:41.064][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:41.065][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:41.066][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:41.067][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:41.068][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:41.069][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:41.070][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:41.070][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:41.071][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:41.072][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:41.073][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:41.074][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:41.081][private$entriesToListOfDataframes] Entry converted to data frame: [1, 12]: [accession, charge, chebi.id, formula, inchi, ...] [4781, 0, 4781, C29H40N2O4, InChI=1S/C29H40N2O4/c1-6-18-17-31-10-8-20-14-27(33-3)29(35-5)16-23(20)25(31)12-21(18)11-24-22-15-28(34-4)26(32-2)13-19(22)7-9-30-24/h13-16,18,21,24-25,30H,6-12,17H2,1-5H3/t18-,21-,24+,25-/m0/s1, ...].
biodb.DEBUG[2025-08-30 16:04:41.082][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:41.083][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:41.083][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:41.087][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:41.088][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:41.089][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:41.090][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:41.091][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:41.092][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:41.093][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:41.094][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:41.095][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:41.096][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:41.097][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:41.098][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:41.099][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:41.100][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:41.101][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:41.101][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:41.102][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:41.103][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:41.104][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:41.105][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:41.106][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:41.107][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:41.108][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:41.109][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:41.110][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:41.111][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:41.112][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:41.113][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:41.114][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:41.115][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:41.116][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:41.116][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:41.117][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:41.118][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:41.119][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:41.120][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:41.121][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:41.122][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:41.123][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:41.124][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:41.125][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:41.126][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:41.127][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:41.128][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:41.129][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:41.130][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:41.131][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:41.132][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:41.132][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:41.133][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:41.134][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:41.135][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:41.136][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:41.137][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:41.138][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:41.139][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:41.140][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:41.141][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:41.142][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:41.143][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:41.144][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:41.145][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:41.146][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:41.147][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:41.148][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:41.149][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:41.150][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:41.150][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:41.151][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:41.152][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:41.153][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:41.154][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:41.155][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:41.156][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:41.157][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:41.158][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:41.159][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:04:41.160][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:41.161][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:41.162][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:41.163][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:04:41.164][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:41.165][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:41.166][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:41.167][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:41.168][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:41.168][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:41.169][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:41.170][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:41.171][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:41.172][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:41.173][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:41.174][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:41.175][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:41.176][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:41.177][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:41.178][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:41.179][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:41.180][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:41.181][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:41.182][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.attr.
biodb.TRACE[2025-08-30 16:04:41.183][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.attr.
biodb.TRACE[2025-08-30 16:04:41.184][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:41.184][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:41.185][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.attr.
biodb.TRACE[2025-08-30 16:04:41.186][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.attr.
biodb.TRACE[2025-08-30 16:04:41.187][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:41.188][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:41.189][private$selectFields] Fields [13]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2025-08-30 16:04:41.190][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:04:41.191][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:04:41.192][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:04:41.193][private$selectFields] Fields [13]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2025-08-30 16:04:41.194][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:41.195][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:41.196][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:41.197][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:41.198][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:41.199][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:41.199][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:41.200][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:41.201][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:41.202][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:41.203][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:41.204][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:41.205][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:41.206][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:41.207][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:41.208][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:41.209][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:41.210][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:41.211][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:41.212][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:41.212][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:41.213][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:41.214][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:41.215][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:41.216][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:41.217][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:41.218][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:41.219][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:41.220][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:41.221][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:41.222][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:41.223][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:41.224][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:41.225][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:41.226][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:41.226][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:41.227][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:04:41.228][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:41.229][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:41.230][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:41.231][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:41.232][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:41.233][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:41.234][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:41.235][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:41.236][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:41.237][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:41.238][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:41.239][ef$get] Asked field names are: peak.attr.
biodb.TRACE[2025-08-30 16:04:41.240][ef$get] Realnames of fields are: peak.attr.
biodb.TRACE[2025-08-30 16:04:41.240][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:41.241][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:41.242][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:41.243][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:41.244][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:41.245][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:41.246][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:41.247][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:41.248][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:41.249][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:41.250][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:41.251][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:41.252][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:41.253][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:41.253][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:41.254][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:41.255][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:41.256][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:41.257][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:41.258][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:41.259][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:41.260][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:41.261][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:41.262][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:41.263][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:41.264][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:41.265][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:41.266][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:41.267][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:41.268][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:41.268][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:41.269][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:41.270][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:41.271][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:41.272][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:41.273][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:41.274][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:41.275][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:41.276][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:04:41.277][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:41.278][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:41.279][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:41.280][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:41.281][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:41.282][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:41.282][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:41.283][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:41.284][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:41.285][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:41.286][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:41.287][ef$get] Asked field names are: peak.attr.
biodb.TRACE[2025-08-30 16:04:41.288][ef$get] Realnames of fields are: peak.attr.
biodb.TRACE[2025-08-30 16:04:41.289][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:41.290][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:41.296][private$selectFields] Fields [11]: "accession, charge, chebi.id, formula, inchi, inchikey, molecular.mass, monoisotopic.mass, n.stars, name, ..."
biodb.TRACE[2025-08-30 16:04:41.297][private$organizeFieldsByGroups] Fields [11]: "accession, charge, chebi.id, formula, inchi, inchikey, molecular.mass, monoisotopic.mass, n.stars, name, ..."
biodb.TRACE[2025-08-30 16:04:41.298][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:41.299][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:41.300][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:41.300][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:41.301][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:41.302][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:41.303][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:41.304][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:41.305][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:41.306][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:41.307][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:41.308][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:41.309][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:41.310][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:41.311][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:41.312][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:41.312][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:41.313][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:41.314][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:41.315][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:41.316][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:41.317][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:41.318][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:41.319][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:41.320][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:41.321][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:41.322][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:41.323][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:41.323][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:41.324][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:41.325][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:41.326][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:41.327][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:04:41.328][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:41.329][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:41.330][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:41.331][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:41.332][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:41.333][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:41.334][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:41.334][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:41.335][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:41.336][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:41.337][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:41.338][private$organizeFieldsByGroups] Groups [2]: "c("accession", "charge", "chebi.id", "formula", "inchi", "inchikey", "molecular.mass", "monoisotopic.mass", "n.stars", "name", "smiles"), list()"
biodb.TRACE[2025-08-30 16:04:41.339][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:41.340][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:41.341][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:41.342][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:41.343][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:41.344][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:41.345][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:41.346][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:41.347][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:41.348][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:41.348][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:41.349][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:41.350][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:41.351][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:41.352][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:41.353][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:41.354][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:41.355][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:41.356][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:41.357][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:41.358][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:41.359][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:41.360][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:41.361][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:41.362][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:41.363][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:41.364][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:41.364][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:41.365][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:41.366][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:41.367][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:41.368][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:41.369][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:41.370][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:41.371][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:41.372][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:41.373][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:41.374][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:41.375][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:41.376][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:41.377][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:41.378][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:41.379][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:41.379][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:41.380][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:41.381][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:41.382][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:41.383][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:41.384][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:41.385][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:41.386][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:41.387][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:41.388][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:41.389][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:41.390][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:41.391][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:41.392][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:41.393][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:41.394][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:41.394][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:41.395][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:41.396][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:41.397][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:41.398][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:41.399][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:41.400][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:41.401][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:41.402][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:41.403][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:41.404][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:41.405][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:41.406][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:41.407][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:41.408][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:41.409][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:41.410][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:41.410][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:41.411][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:41.412][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:41.413][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:41.414][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:41.415][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:41.416][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:41.417][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:41.418][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:41.419][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:41.420][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:41.421][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:41.422][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:41.423][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:41.424][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:41.425][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:41.426][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:41.427][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:41.427][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:41.428][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:41.429][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:04:41.430][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:41.431][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:41.432][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:41.433][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:04:41.434][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:41.435][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:41.436][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:41.437][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:04:41.438][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:41.439][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:41.440][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:41.441][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:41.442][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:41.443][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:41.444][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:41.445][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:41.446][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:41.447][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:41.447][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:41.448][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:41.449][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:41.450][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:41.451][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:41.452][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:41.453][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:41.454][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:41.455][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:41.456][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:41.457][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:41.458][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:41.459][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:41.460][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:41.461][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:41.462][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:41.463][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:41.469][private$entriesToListOfDataframes] Entry converted to data frame: [1, 11]: [accession, charge, chebi.id, formula, inchi, ...] [91601, 0, 91601, C29H40N2O4, InChI=1S/C29H40N2O4/c1-6-18-17-31-10-8-20-14-27(33-3)29(35-5)16-23(20)25(31)12-21(18)11-24-22-15-28(34-4)26(32-2)13-19(22)7-9-30-24/h13-16,18,21,24-25,30H,6-12,17H2,1-5H3/t18-,21-,24?,25?/m0/s1, ...].
biodb.DEBUG[2025-08-30 16:04:41.470][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:41.471][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:41.471][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:41.476][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:41.477][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:41.477][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:41.478][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:41.480][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:41.481][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:41.481][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:41.482][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:41.483][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:41.484][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:41.485][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:41.486][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:41.487][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:41.488][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:41.489][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:41.490][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:41.491][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:41.492][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:41.493][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:41.494][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:41.495][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:41.496][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:41.497][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:41.498][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:41.498][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:41.499][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:41.500][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:41.501][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:41.502][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:41.503][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:41.504][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:41.505][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:41.506][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:41.507][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:41.508][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:41.509][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:41.510][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:41.511][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:41.512][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:41.513][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:41.514][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:41.515][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:41.515][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:41.516][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:41.517][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:41.518][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:41.519][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:41.520][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:41.521][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:41.522][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:41.523][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:41.524][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:41.525][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:41.526][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:41.527][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:41.528][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:41.529][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:41.530][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:41.531][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:41.531][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:41.532][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:41.533][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:41.534][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:41.535][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:41.536][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:41.537][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:41.538][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:41.539][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:41.540][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:41.541][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:41.542][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:41.543][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:41.544][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:41.545][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:41.546][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:41.547][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:41.548][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:04:41.549][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:41.549][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:41.550][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:41.551][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:04:41.552][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:41.553][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:41.554][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:41.555][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:41.556][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:41.557][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:41.558][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:41.559][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:41.560][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:41.561][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:41.562][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:41.563][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:41.564][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:41.565][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:41.566][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:41.566][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:41.568][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:41.568][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:41.569][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:41.570][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.attr.
biodb.TRACE[2025-08-30 16:04:41.571][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.attr.
biodb.TRACE[2025-08-30 16:04:41.572][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:41.573][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:41.574][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.attr.
biodb.TRACE[2025-08-30 16:04:41.575][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.attr.
biodb.TRACE[2025-08-30 16:04:41.576][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:41.577][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:41.578][private$selectFields] Fields [13]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2025-08-30 16:04:41.579][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:04:41.580][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:04:41.581][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:04:41.582][private$selectFields] Fields [13]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2025-08-30 16:04:41.583][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:41.584][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:41.584][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:41.585][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:41.586][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:41.587][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:41.588][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:41.589][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:41.590][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:41.591][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:41.592][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:41.593][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:41.594][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:41.595][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:41.596][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:41.597][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:41.598][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:41.599][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:41.599][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:41.600][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:41.606][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:41.607][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:41.608][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:41.609][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:41.610][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:41.611][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:41.612][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:41.613][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:41.614][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:41.615][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:41.616][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:41.616][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:41.617][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:41.618][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:41.619][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:41.620][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:41.621][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:04:41.622][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:41.623][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:41.624][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:41.625][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:41.626][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:41.627][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:41.628][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:41.629][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:41.630][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:41.631][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:41.632][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:41.633][ef$get] Asked field names are: peak.attr.
biodb.TRACE[2025-08-30 16:04:41.634][ef$get] Realnames of fields are: peak.attr.
biodb.TRACE[2025-08-30 16:04:41.634][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:41.635][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:41.636][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:41.637][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:41.638][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:41.639][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:41.640][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:41.641][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:41.642][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:41.643][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:41.644][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:41.645][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:41.646][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:41.646][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:41.647][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:41.648][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:41.649][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:41.650][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:41.651][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:41.652][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:41.653][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:41.654][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:41.655][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:41.656][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:41.657][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:41.657][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:41.658][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:41.659][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:41.660][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:41.661][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:41.662][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:41.663][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:41.664][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:41.665][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:41.666][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:41.667][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:41.668][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:41.669][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:41.669][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:04:41.670][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:41.671][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:41.672][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:41.673][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:41.674][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:41.675][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:41.676][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:41.677][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:41.678][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:41.679][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:41.680][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:41.680][ef$get] Asked field names are: peak.attr.
biodb.TRACE[2025-08-30 16:04:41.681][ef$get] Realnames of fields are: peak.attr.
biodb.TRACE[2025-08-30 16:04:41.682][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:41.683][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:41.684][private$selectFields] Fields [11]: "accession, charge, chebi.id, formula, inchi, inchikey, molecular.mass, monoisotopic.mass, n.stars, name, ..."
biodb.TRACE[2025-08-30 16:04:41.685][private$organizeFieldsByGroups] Fields [11]: "accession, charge, chebi.id, formula, inchi, inchikey, molecular.mass, monoisotopic.mass, n.stars, name, ..."
biodb.TRACE[2025-08-30 16:04:41.686][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:41.687][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:41.688][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:41.689][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:41.690][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:41.691][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:41.692][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:41.693][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:41.693][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:41.694][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:41.695][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:41.696][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:41.697][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:41.698][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:41.699][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:41.700][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:41.701][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:41.702][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:41.703][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:41.704][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:41.704][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:41.705][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:41.706][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:41.707][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:41.708][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:41.709][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:41.710][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:41.711][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:41.712][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:41.713][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:41.714][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:41.715][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:41.715][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:04:41.716][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:41.717][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:41.718][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:41.719][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:41.720][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:41.721][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:41.722][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:41.723][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:41.724][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:41.725][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:41.726][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:41.727][private$organizeFieldsByGroups] Groups [2]: "c("accession", "charge", "chebi.id", "formula", "inchi", "inchikey", "molecular.mass", "monoisotopic.mass", "n.stars", "name", "smiles"), list()"
biodb.TRACE[2025-08-30 16:04:41.728][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:41.729][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:41.730][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:41.730][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:41.731][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:41.732][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:41.733][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:41.734][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:41.735][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:41.736][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:41.737][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:41.738][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:41.739][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:41.740][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:41.741][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:41.742][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:41.743][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:41.744][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:41.745][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:41.746][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:41.746][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:41.748][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:41.748][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:41.749][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:41.750][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:41.751][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:41.752][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:41.753][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:41.754][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:41.755][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:41.756][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:41.757][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:41.758][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:41.759][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:41.760][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:41.761][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:41.762][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:41.763][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:41.764][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:41.765][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:41.766][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:41.767][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:41.768][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:41.769][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:41.770][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:41.771][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:41.771][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:41.772][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:41.773][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:41.774][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:41.775][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:41.776][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:41.777][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:41.778][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:41.779][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:41.780][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:41.781][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:41.782][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:41.783][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:41.784][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:41.785][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:41.786][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:41.787][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:41.788][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:41.789][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:41.790][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:41.791][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:41.792][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:41.793][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:41.794][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:41.794][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:41.795][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:41.797][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:41.798][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:41.798][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:41.799][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:41.800][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:41.801][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:41.802][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:41.803][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:41.804][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:41.805][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:41.806][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:41.807][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:41.808][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:41.809][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:41.810][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:41.811][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:41.812][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:41.813][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:41.814][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:41.815][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:41.816][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:41.817][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:41.818][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:41.818][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:41.820][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:04:41.821][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:41.822][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:41.822][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:41.823][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:04:41.824][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:41.825][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:41.826][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:41.827][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:04:41.828][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:41.829][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:41.830][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:41.831][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:41.832][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:41.833][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:41.834][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:41.835][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:41.836][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:41.837][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:41.838][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:41.839][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:41.840][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:41.841][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:41.841][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:41.843][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:41.844][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:41.844][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:41.845][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:41.846][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:41.847][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:41.848][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:41.849][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:41.850][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:41.851][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:41.852][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:41.853][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:41.859][private$entriesToListOfDataframes] Entry converted to data frame: [1, 11]: [accession, charge, chebi.id, formula, inchi, ...] [95147, 0, 95147, C29H40N2O4, InChI=1S/C29H40N2O4/c1-3-18-16(2)14-22-20(18)10-11-21-19-6-4-8-26(33)30-13-5-7-24-28(34)27(29(35)31-24)25(32)12-9-17(19)15-23(21)22/h4,8,10-11,16-24,27H,3,5-7,9,12-15H2,1-2H3,(H,30,33)(H,31,35)/t16-,17-,18-,19+,20+,21-,22+,23+,24+,27?/m1/s1, ...].
biodb.DEBUG[2025-08-30 16:04:41.860][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-08-30 16:04:41.861][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2025-08-30 16:04:41.864][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:41.865][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:41.866][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:41.870][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:41.871][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:41.871][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:41.872][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:04:41.875][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.17*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-08-30 16:04:41.878][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-08-30 16:04:41.879][cch$loadFileContent] Trying to load 1 files from cache: [1]: "acfa4b558978abf12409c2b56e678d03".
biodb.TRACE[2025-08-30 16:04:41.880][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-08-30 16:04:41.881][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/acfa4b558978abf12409c2b56e678d03.content".
biodb.DEBUG[2025-08-30 16:04:41.884][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:41.885][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:41.886][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:41.890][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:41.891][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:41.892][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:41.892][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:41.893][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:41.894][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:41.895][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:41.896][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:41.897][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:41.898][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:41.899][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:41.900][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:41.901][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:41.902][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:41.903][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:41.904][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:41.905][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:41.906][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:41.907][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:41.911][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:41.919][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:41.920][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:41.921][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:41.922][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:41.923][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:41.924][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:41.925][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:41.926][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:41.927][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:41.928][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:41.929][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:41.930][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:41.931][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:41.932][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:41.933][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:41.934][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:41.934][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:41.935][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:41.939][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:41.940][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:41.941][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:41.942][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:41.943][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:41.944][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:41.945][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:41.946][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:41.947][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:41.948][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:41.948][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:41.949][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:41.950][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:41.951][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:41.952][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:41.953][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:41.954][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-08-30 16:04:41.956][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:41.956][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:41.957][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:41.961][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:41.962][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:41.963][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:41.964][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:41.965][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:41.966][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:41.967][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:41.967][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:41.968][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:41.969][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:41.970][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:41.971][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:41.972][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:41.973][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:41.974][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:41.975][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:41.976][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:41.977][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:41.978][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:41.979][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:41.980][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:41.981][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:41.981][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:41.982][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:41.983][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:41.984][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:41.985][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:41.986][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:41.987][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:41.988][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:41.989][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:41.990][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:41.991][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:41.992][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:41.993][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:41.993][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:41.994][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:41.995][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:41.996][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:41.997][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:41.998][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:41.999][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:42.000][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:42.001][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:42.002][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:42.003][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:42.004][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:42.005][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:42.006][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:42.007][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:42.008][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:42.008][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:42.009][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:42.010][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:42.011][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:42.012][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:42.013][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:42.014][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:42.015][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:42.016][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:42.017][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:42.018][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:42.019][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:42.020][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:42.021][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:42.022][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:42.022][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:42.023][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:42.024][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:42.025][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:42.026][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:42.027][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:42.028][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:42.029][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:42.030][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:42.031][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:42.032][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:04:42.033][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:42.034][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:42.034][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:42.035][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:04:42.036][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:42.037][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:42.038][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:42.039][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:42.040][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:42.041][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:42.042][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:42.043][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:42.044][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:42.045][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:42.046][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:42.047][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:42.048][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:42.049][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:42.049][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:42.050][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:42.051][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:42.052][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:42.053][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:42.054][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.attr.
biodb.TRACE[2025-08-30 16:04:42.055][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.attr.
biodb.TRACE[2025-08-30 16:04:42.056][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:42.057][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:42.058][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.attr.
biodb.TRACE[2025-08-30 16:04:42.059][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.attr.
biodb.TRACE[2025-08-30 16:04:42.060][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:42.061][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:42.062][private$selectFields] Fields [13]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2025-08-30 16:04:42.063][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:04:42.064][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:04:42.064][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:04:42.065][private$selectFields] Fields [13]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2025-08-30 16:04:42.066][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:42.067][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:42.068][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:42.069][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:42.070][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:42.071][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:42.072][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:42.073][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:42.074][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:42.075][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:42.076][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:42.077][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:42.078][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:42.079][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:42.080][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:42.080][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:42.081][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:42.082][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:42.083][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:42.084][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:42.085][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:42.086][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:42.087][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:42.088][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:42.089][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:42.090][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:42.091][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:42.092][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:42.093][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:42.094][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:42.095][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:42.095][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:42.096][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:42.097][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:42.098][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:42.099][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:42.100][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:04:42.101][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:42.102][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:42.103][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:42.104][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:42.105][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:42.106][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:42.107][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:42.108][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:42.109][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:42.109][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:42.110][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:42.111][ef$get] Asked field names are: peak.attr.
biodb.TRACE[2025-08-30 16:04:42.112][ef$get] Realnames of fields are: peak.attr.
biodb.TRACE[2025-08-30 16:04:42.113][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:42.114][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:42.115][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:42.116][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:42.117][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:42.118][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:42.119][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:42.120][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:42.121][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:42.122][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:42.123][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:42.124][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:42.124][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:42.125][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:42.126][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:42.127][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:42.128][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:42.129][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:42.130][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:42.131][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:42.132][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:42.133][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:42.134][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:42.135][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:42.136][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:42.137][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:42.137][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:42.138][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:42.139][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:42.140][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:42.141][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:42.142][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:42.143][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:42.144][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:42.145][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:42.146][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:42.147][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:42.148][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:42.149][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:04:42.150][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:42.150][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:42.151][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:42.152][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:42.153][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:42.154][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:42.155][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:42.156][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:42.157][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:42.158][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:42.159][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:42.160][ef$get] Asked field names are: peak.attr.
biodb.TRACE[2025-08-30 16:04:42.161][ef$get] Realnames of fields are: peak.attr.
biodb.TRACE[2025-08-30 16:04:42.162][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:42.163][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:42.164][private$selectFields] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2025-08-30 16:04:42.164][private$organizeFieldsByGroups] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2025-08-30 16:04:42.165][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:42.166][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:42.167][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:42.168][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:42.169][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:42.170][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:42.171][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:42.172][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:42.173][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:42.174][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:42.175][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:42.176][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:42.177][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:42.178][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:42.178][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:42.179][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:42.180][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:42.181][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:42.182][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:42.183][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:42.184][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:42.185][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:42.186][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:42.187][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:42.188][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:42.189][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:42.190][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:42.190][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:42.191][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:42.192][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:42.193][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:42.194][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:42.195][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:42.196][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:42.197][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:42.198][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:42.199][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:04:42.200][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:42.201][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:42.202][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:42.203][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:42.204][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:42.204][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:42.205][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:42.206][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:42.207][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:42.208][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:42.209][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:42.210][private$organizeFieldsByGroups] Groups [2]: "c("accession", "charge", "chebi.id", "formula", "inchi", "inchikey", "kegg.compound.id", "molecular.mass", "monoisotopic.mass", "n.stars", "name", "smiles"), list()"
biodb.TRACE[2025-08-30 16:04:42.211][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:42.212][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:42.213][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:42.214][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:42.215][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:42.216][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:42.217][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:42.218][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:42.219][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:42.220][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:42.220][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:42.221][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:42.222][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:42.224][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:42.224][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:42.225][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:42.226][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:42.232][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:42.233][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:42.234][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:42.235][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:42.236][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:42.237][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:42.238][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:42.239][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:42.240][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:42.241][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:42.242][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:42.243][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:42.244][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:42.245][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:42.246][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:42.247][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:42.248][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:42.249][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:42.250][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:42.251][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:42.252][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:42.253][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:42.254][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:42.254][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:42.255][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:42.256][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:42.257][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:42.258][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:42.259][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:42.260][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:42.261][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:42.262][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:42.263][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:42.264][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:42.265][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:42.266][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:42.267][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:42.268][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:42.269][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:42.269][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:42.270][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:42.271][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:42.272][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:42.273][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:42.274][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:42.275][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:42.276][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:42.277][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:42.278][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:42.279][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:42.280][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:42.281][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:42.282][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:42.283][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:42.283][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:42.285][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:42.286][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:42.286][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:42.287][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:42.288][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:42.289][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:42.290][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:42.291][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:42.292][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:42.293][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:42.294][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:42.295][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:42.296][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:42.297][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:42.298][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:42.299][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:42.300][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:42.301][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:42.301][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:42.302][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:42.303][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:42.304][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:42.305][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:42.306][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:42.307][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:42.308][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:42.309][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:42.310][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:42.311][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:42.312][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:42.313][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:42.314][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:42.315][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:42.316][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:42.316][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:42.317][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:42.318][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:04:42.319][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:42.320][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:42.321][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:42.322][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:04:42.323][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:42.324][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:42.325][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:42.326][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:04:42.327][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:42.328][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:42.329][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:42.330][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:42.331][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:42.332][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:42.332][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:42.333][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:42.334][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:42.335][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:42.336][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:42.337][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:42.338][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:42.339][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:42.340][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:42.341][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:42.342][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:42.343][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:42.344][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:42.345][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:42.346][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:42.347][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:42.347][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:42.348][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:42.349][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:42.350][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:42.351][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:42.358][private$entriesToListOfDataframes] Entry converted to data frame: [1, 12]: [accession, charge, chebi.id, formula, inchi, ...] [636, 0, 636, C24H26O6, InChI=1S/C24H26O6/c1-12(2)6-7-14-19-17(11-16(26)22(14)28-5)29-18-10-15(25)13-8-9-24(3,4)30-23(13)20(18)21(19)27/h6,10-11,25-26H,7-9H2,1-5H3, ...].
biodb.DEBUG[2025-08-30 16:04:42.359][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:42.360][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:42.360][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:42.365][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:42.366][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:42.366][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:42.367][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:42.368][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:42.369][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:42.370][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:42.371][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:42.372][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:42.373][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:42.374][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:42.375][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:42.376][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:42.377][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:42.378][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:42.379][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:42.380][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:42.381][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:42.382][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:42.383][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:42.383][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:42.385][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:42.385][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:42.386][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:42.387][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:42.388][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:42.389][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:42.390][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:42.391][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:42.392][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:42.393][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:42.394][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:42.395][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:42.396][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:42.397][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:42.398][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:42.399][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:42.400][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:42.401][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:42.401][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:42.402][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:42.403][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:42.404][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:42.405][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:42.406][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:42.407][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:42.408][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:42.409][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:42.410][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:42.411][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:42.412][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:42.413][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:42.414][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:42.415][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:42.416][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:42.417][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:42.418][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:42.419][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:42.419][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:42.420][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:42.421][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:42.422][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:42.423][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:42.424][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:42.425][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:42.426][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:42.427][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:42.428][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:42.429][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:42.430][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:42.431][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:42.432][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:42.433][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:42.434][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:42.435][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:42.435][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:42.436][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:04:42.437][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:42.438][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:42.439][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:42.440][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:04:42.441][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:42.442][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:42.443][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:42.444][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:42.445][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:42.446][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:42.447][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:42.448][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:42.449][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:42.450][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:42.451][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:42.452][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:42.453][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:42.453][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:42.454][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:42.455][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:42.456][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:42.457][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:42.458][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:42.459][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.attr.
biodb.TRACE[2025-08-30 16:04:42.460][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.attr.
biodb.TRACE[2025-08-30 16:04:42.461][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:42.462][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:42.463][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.attr.
biodb.TRACE[2025-08-30 16:04:42.464][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.attr.
biodb.TRACE[2025-08-30 16:04:42.465][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:42.466][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:42.467][private$selectFields] Fields [13]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2025-08-30 16:04:42.468][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:04:42.468][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:04:42.469][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:04:42.470][private$selectFields] Fields [13]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2025-08-30 16:04:42.471][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:42.472][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:42.473][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:42.474][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:42.475][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:42.476][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:42.477][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:42.478][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:42.479][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:42.480][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:42.481][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:42.481][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:42.482][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:42.483][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:42.484][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:42.485][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:42.486][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:42.487][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:42.488][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:42.489][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:42.490][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:42.491][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:42.492][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:42.493][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:42.494][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:42.495][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:42.496][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:42.496][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:42.497][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:42.498][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:42.499][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:42.500][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:42.501][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:42.502][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:42.503][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:42.504][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:42.505][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:04:42.506][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:42.507][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:42.508][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:42.509][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:42.510][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:42.510][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:42.511][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:42.512][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:42.513][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:42.514][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:42.515][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:42.516][ef$get] Asked field names are: peak.attr.
biodb.TRACE[2025-08-30 16:04:42.517][ef$get] Realnames of fields are: peak.attr.
biodb.TRACE[2025-08-30 16:04:42.518][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:42.519][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:42.520][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:42.521][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:42.522][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:42.523][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:42.524][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:42.525][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:42.525][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:42.526][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:42.527][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:42.528][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:42.529][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:42.530][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:42.531][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:42.532][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:42.533][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:42.534][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:42.535][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:42.536][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:42.537][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:42.538][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:42.538][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:42.544][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:42.545][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:42.546][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:42.547][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:42.548][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:42.549][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:42.550][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:42.551][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:42.552][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:42.553][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:42.554][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:42.555][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:42.556][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:42.557][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:42.558][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:42.558][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:04:42.559][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:42.560][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:42.561][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:42.562][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:42.563][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:42.564][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:42.565][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:42.566][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:42.567][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:42.568][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:42.569][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:42.570][ef$get] Asked field names are: peak.attr.
biodb.TRACE[2025-08-30 16:04:42.571][ef$get] Realnames of fields are: peak.attr.
biodb.TRACE[2025-08-30 16:04:42.571][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:42.572][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:42.573][private$selectFields] Fields [11]: "accession, charge, chebi.id, formula, inchi, inchikey, molecular.mass, monoisotopic.mass, n.stars, name, ..."
biodb.TRACE[2025-08-30 16:04:42.574][private$organizeFieldsByGroups] Fields [11]: "accession, charge, chebi.id, formula, inchi, inchikey, molecular.mass, monoisotopic.mass, n.stars, name, ..."
biodb.TRACE[2025-08-30 16:04:42.575][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:42.576][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:42.577][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:42.578][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:42.579][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:42.580][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:42.581][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:42.582][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:42.582][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:42.583][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:42.584][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:42.585][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:42.586][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:42.587][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:42.588][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:42.589][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:42.590][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:42.591][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:42.592][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:42.593][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:42.594][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:42.595][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:42.595][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:42.596][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:42.597][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:42.598][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:42.599][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:42.600][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:42.601][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:42.602][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:42.603][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:42.604][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:42.605][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:04:42.606][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:42.606][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:42.607][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:42.608][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:42.609][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:42.610][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:42.611][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:42.612][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:42.613][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:42.614][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:42.615][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:42.616][private$organizeFieldsByGroups] Groups [2]: "c("accession", "charge", "chebi.id", "formula", "inchi", "inchikey", "molecular.mass", "monoisotopic.mass", "n.stars", "name", "smiles"), list()"
biodb.TRACE[2025-08-30 16:04:42.617][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:42.618][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:42.618][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:42.620][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:42.621][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:42.623][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:42.624][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:42.626][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:42.627][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:42.628][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:42.629][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:42.630][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:42.631][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:42.632][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:42.633][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:42.634][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:42.635][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:42.636][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:42.637][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:42.638][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:42.639][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:42.640][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:42.641][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:42.642][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:42.643][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:42.644][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:42.645][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:42.646][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:42.647][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:42.648][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:42.649][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:42.650][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:42.651][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:42.651][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:42.652][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:42.653][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:42.654][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:42.655][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:42.656][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:42.657][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:42.658][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:42.659][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:42.660][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:42.661][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:42.662][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:42.663][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:42.664][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:42.665][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:42.666][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:42.667][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:42.668][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:42.669][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:42.670][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:42.671][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:42.672][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:42.673][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:42.673][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:42.674][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:42.675][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:42.676][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:42.677][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:42.678][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:42.679][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:42.680][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:42.681][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:42.682][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:42.683][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:42.684][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:42.685][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:42.686][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:42.687][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:42.688][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:42.689][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:42.690][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:42.691][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:42.692][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:42.693][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:42.694][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:42.695][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:42.696][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:42.697][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:42.698][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:42.699][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:42.700][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:42.701][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:42.702][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:42.703][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:42.703][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:42.704][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:42.705][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:42.706][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:42.707][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:42.708][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:42.709][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:42.710][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:42.711][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:42.712][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:04:42.713][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:42.714][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:42.715][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:42.716][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:04:42.717][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:42.718][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:42.719][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:42.720][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:04:42.721][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:42.722][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:42.723][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:42.724][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:42.725][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:42.726][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:42.727][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:42.728][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:42.729][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:42.730][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:42.731][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:42.732][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:42.733][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:42.734][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:42.735][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:42.736][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:42.737][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:42.738][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:42.739][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:42.740][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:42.741][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:42.742][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:42.743][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:42.744][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:42.745][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:42.746][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:42.747][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:42.753][private$entriesToListOfDataframes] Entry converted to data frame: [1, 11]: [accession, charge, chebi.id, formula, inchi, ...] [64199, 0, 64199, C24H27ClN2O2, InChI=1S/C24H26N2O2.ClH/c27-24(28)20-9-10-23-22(16-20)21(17-25-23)8-4-5-13-26-14-11-19(12-15-26)18-6-2-1-3-7-18;/h1-3,6-7,9-11,16-17,25H,4-5,8,12-15H2,(H,27,28);1H, ...].
biodb.DEBUG[2025-08-30 16:04:42.754][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:42.755][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:42.756][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:42.760][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:42.761][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:42.762][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:42.762][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:42.764][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:42.765][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:42.765][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:42.766][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:42.767][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:42.768][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:42.769][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:42.770][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:42.771][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:42.772][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:42.773][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:42.774][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:42.775][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:42.776][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:42.777][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:42.778][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:42.779][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:42.780][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:42.781][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:42.782][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:42.782][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:42.783][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:42.784][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:42.785][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:42.786][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:42.787][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:42.788][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:42.789][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:42.790][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:42.791][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:42.792][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:42.793][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:42.794][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:42.795][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:42.796][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:42.797][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:42.798][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:42.799][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:42.799][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:42.800][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:42.801][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:42.802][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:42.803][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:42.804][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:42.805][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:42.806][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:42.807][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:42.808][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:42.809][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:42.810][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:42.811][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:42.812][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:42.813][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:42.814][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:42.815][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:42.816][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:42.817][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:42.818][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:42.818][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:42.819][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:42.820][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:42.821][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:42.822][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:42.823][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:42.824][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:42.825][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:42.826][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:42.827][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:42.828][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:42.829][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:42.830][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:42.831][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:42.832][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:04:42.833][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:42.834][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:42.835][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:42.836][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:04:42.837][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:42.837][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:42.838][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:42.839][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:42.840][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:42.841][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:42.842][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:42.843][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:42.844][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:42.845][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:42.846][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:42.847][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:42.848][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:42.849][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:42.850][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:42.851][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:42.852][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:42.853][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:42.854][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:42.855][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.attr.
biodb.TRACE[2025-08-30 16:04:42.856][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.attr.
biodb.TRACE[2025-08-30 16:04:42.856][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:42.862][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:42.863][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.attr.
biodb.TRACE[2025-08-30 16:04:42.864][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.attr.
biodb.TRACE[2025-08-30 16:04:42.865][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:42.866][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:42.867][private$selectFields] Fields [13]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2025-08-30 16:04:42.868][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:04:42.869][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:04:42.870][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:04:42.871][private$selectFields] Fields [13]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2025-08-30 16:04:42.872][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:42.873][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:42.874][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:42.875][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:42.876][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:42.877][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:42.877][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:42.878][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:42.879][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:42.880][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:42.881][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:42.882][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:42.883][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:42.884][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:42.885][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:42.886][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:42.887][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:42.888][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:42.889][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:42.889][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:42.890][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:42.891][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:42.892][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:42.893][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:42.894][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:42.895][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:42.896][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:42.897][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:42.898][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:42.899][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:42.900][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:42.901][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:42.901][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:42.902][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:42.903][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:42.904][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:42.905][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:04:42.906][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:42.907][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:42.908][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:42.909][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:42.910][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:42.911][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:42.912][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:42.912][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:42.913][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:42.914][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:42.915][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:42.916][ef$get] Asked field names are: peak.attr.
biodb.TRACE[2025-08-30 16:04:42.917][ef$get] Realnames of fields are: peak.attr.
biodb.TRACE[2025-08-30 16:04:42.918][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:42.919][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:42.920][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:42.921][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:42.922][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:42.923][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:42.924][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:42.925][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:42.925][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:42.926][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:42.927][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:42.928][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:42.929][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:42.930][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:42.931][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:42.932][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:42.933][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:42.934][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:42.935][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:42.936][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:42.937][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:42.937][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:42.938][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:42.939][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:42.940][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:42.941][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:42.942][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:42.943][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:42.944][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:42.945][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:42.946][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:42.947][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:42.948][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:42.949][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:42.949][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:42.950][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:42.951][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:42.952][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:42.953][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:04:42.954][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:42.955][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:42.956][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:42.957][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:42.958][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:42.959][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:42.960][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:42.961][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:42.962][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:42.963][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:42.963][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:42.964][ef$get] Asked field names are: peak.attr.
biodb.TRACE[2025-08-30 16:04:42.965][ef$get] Realnames of fields are: peak.attr.
biodb.TRACE[2025-08-30 16:04:42.966][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:42.967][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:42.968][private$selectFields] Fields [11]: "accession, charge, chebi.id, formula, inchi, inchikey, molecular.mass, monoisotopic.mass, n.stars, name, ..."
biodb.TRACE[2025-08-30 16:04:42.969][private$organizeFieldsByGroups] Fields [11]: "accession, charge, chebi.id, formula, inchi, inchikey, molecular.mass, monoisotopic.mass, n.stars, name, ..."
biodb.TRACE[2025-08-30 16:04:42.970][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:42.971][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:42.972][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:42.973][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:42.974][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:42.975][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:42.975][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:42.976][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:42.977][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:42.978][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:42.979][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:42.980][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:42.981][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:42.982][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:42.983][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:42.984][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:42.985][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:42.986][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:42.987][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:42.987][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:42.988][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:42.989][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:42.990][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:42.991][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:42.992][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:42.993][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:42.994][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:42.995][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:42.996][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:42.997][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:42.998][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:42.998][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:42.999][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:04:43.000][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:43.001][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:43.002][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:43.003][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:43.004][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:43.005][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:43.006][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:43.007][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:43.008][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:43.009][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:43.010][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:43.011][private$organizeFieldsByGroups] Groups [2]: "c("accession", "charge", "chebi.id", "formula", "inchi", "inchikey", "molecular.mass", "monoisotopic.mass", "n.stars", "name", "smiles"), list()"
biodb.TRACE[2025-08-30 16:04:43.012][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:43.013][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:43.014][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:43.014][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:43.015][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:43.016][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:43.017][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:43.018][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:43.019][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:43.020][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:43.021][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:43.022][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:43.023][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:43.024][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:43.025][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:43.026][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:43.027][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:43.028][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:43.029][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:43.030][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:43.031][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:43.032][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:43.033][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:43.034][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:43.035][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:43.036][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:43.037][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:43.037][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:43.038][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:43.039][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:43.040][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:43.041][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:43.042][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:43.043][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:43.044][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:43.045][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:43.046][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:43.047][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:43.048][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:43.049][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:43.050][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:43.051][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:43.052][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:43.053][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:43.054][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:43.055][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:43.055][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:43.056][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:43.057][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:43.058][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:43.059][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:43.060][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:43.061][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:43.062][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:43.063][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:43.064][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:43.065][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:43.066][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:43.067][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:43.068][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:43.069][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:43.070][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:43.071][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:43.072][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:43.073][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:43.074][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:43.075][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:43.075][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:43.076][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:43.077][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:43.078][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:43.079][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:43.080][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:43.081][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:43.082][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:43.083][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:43.084][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:43.085][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:43.086][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:43.087][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:43.088][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:43.089][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:43.090][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:43.091][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:43.092][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:43.093][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:43.094][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:43.095][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:43.096][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:43.097][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:43.097][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:43.098][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:43.099][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:43.100][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:43.101][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:43.102][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:43.103][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:04:43.104][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:43.105][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:43.106][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:43.107][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:04:43.108][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:43.109][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:43.110][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:43.111][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:04:43.112][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:43.113][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:43.113][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:43.115][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:43.116][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:43.116][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:43.117][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:43.118][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:43.119][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:43.120][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:43.121][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:43.122][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:43.123][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:43.124][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:43.125][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:43.126][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:43.127][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:43.128][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:43.129][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:43.130][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:43.131][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:43.132][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:43.133][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:43.134][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:43.135][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:43.135][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:43.136][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:43.142][private$entriesToListOfDataframes] Entry converted to data frame: [1, 11]: [accession, charge, chebi.id, formula, inchi, ...] [65648, 0, 65648, C24H26O6, InChI=1S/C24H26O6/c1-13(2)9-10-23-20(27)22(28-5)11-14-19(26)18-15(25)7-6-8-16(18)29-24(14,23)17(12-22)21(3,4)30-23/h6-9,11,17,25H,10,12H2,1-5H3/t17-,22-,23-,24+/m0/s1, ...].
biodb.DEBUG[2025-08-30 16:04:43.143][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-08-30 16:04:43.144][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-08-30 16:04:43.150][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2025-08-30 16:04:43.151][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2025-08-30 16:04:43.152][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:43.153][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:43.154][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2025-08-30 16:04:43.155][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2025-08-30 16:04:43.156][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:43.156][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:43.157][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2025-08-30 16:04:43.158][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2025-08-30 16:04:43.159][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:43.160][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-08-30 16:04:43.163][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2025-08-30 16:04:43.165][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector chebi from the request scheduler
biodb.INFO [2025-08-30 16:04:43.166][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2025-08-30 16:04:43.166][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2025-08-30 16:04:43.172][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:43.173][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:43.174][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:43.175][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:43.176][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:43.177][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
[ FAIL 0 | WARN 0 | SKIP 0 | PASS 1392 ]
> 
> proc.time()
   user  system elapsed 
 86.351   2.815 179.243

'R CMD check' output

##############################################################################
##############################################################################
###
### Running command:
###
###   /home/biocbuild/bbs-3.21-bioc/R/bin/R CMD check --test-dir=longtests --no-stop-on-test-error --no-codoc --no-examples --no-manual --ignore-vignettes --check-subdirs=no biodbChebi_1.14.0.tar.gz
###
##############################################################################
##############################################################################


* using log directory ‘/home/biocbuild/bbs-3.21-bioc-longtests/meat/biodbChebi.Rcheck’
* using R version 4.5.1 (2025-06-13)
* using platform: x86_64-pc-linux-gnu
* R was compiled by
    gcc (Ubuntu 13.3.0-6ubuntu2~24.04) 13.3.0
    GNU Fortran (Ubuntu 13.3.0-6ubuntu2~24.04) 13.3.0
* running under: Ubuntu 24.04.3 LTS
* using session charset: UTF-8
* using options ‘--no-codoc --no-examples --no-manual --ignore-vignettes --no-stop-on-test-error’
* checking for file ‘biodbChebi/DESCRIPTION’ ... OK
* this is package ‘biodbChebi’ version ‘1.14.0’
* package encoding: UTF-8
* checking package namespace information ... OK
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking if there is a namespace ... OK
* checking for hidden files and directories ... OK
* checking for portable file names ... OK
* checking for sufficient/correct file permissions ... OK
* checking whether package ‘biodbChebi’ can be installed ... OK
* checking installed package size ... OK
* checking package directory ... OK
* checking DESCRIPTION meta-information ... OK
* checking top-level files ... OK
* checking for left-over files ... OK
* checking index information ... OK
* checking package subdirectories ... OK
* checking code files for non-ASCII characters ... OK
* checking R files for syntax errors ... OK
* checking whether the package can be loaded ... OK
* checking whether the package can be loaded with stated dependencies ... OK
* checking whether the package can be unloaded cleanly ... OK
* checking whether the namespace can be loaded with stated dependencies ... OK
* checking whether the namespace can be unloaded cleanly ... OK
* checking loading without being on the library search path ... OK
* checking dependencies in R code ... OK
* checking S3 generic/method consistency ... OK
* checking replacement functions ... OK
* checking foreign function calls ... OK
* checking R code for possible problems ... OK
* checking Rd files ... OK
* checking Rd metadata ... OK
* checking Rd cross-references ... OK
* checking for missing documentation entries ... OK
* checking for code/documentation mismatches ... SKIPPED
* checking Rd \usage sections ... OK
* checking Rd contents ... OK
* checking for unstated dependencies in examples ... OK
* checking files in ‘vignettes’ ... SKIPPED
* checking examples ... SKIPPED
* checking for unstated dependencies in ‘longtests’ ... OK
* checking tests in ‘longtests’ ...
  Running ‘testthat.R’
 OK
* DONE

Status: OK

Installation output

biodbChebi.Rcheck/00install.out

* installing *source* package ‘biodbChebi’ ...
** this is package ‘biodbChebi’ version ‘1.14.0’
** using staged installation
** R
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded from temporary location
** testing if installed package can be loaded from final location
** testing if installed package keeps a record of temporary installation path
* DONE (biodbChebi)